Joint Open Genome and Omics Platform (JoGo)

Item	Value
geneid	79937
ensemblid	ENSG00000106714.18
hgncid	13834
symbol	CNTNAP3
name	contactin associated protein family member 3
refseq_nuc	NM_033655.5
refseq_prot	NP_387504.2
ensembl_nuc	ENST00000297668.11
ensembl_prot	ENSP00000297668.6
mane_status	MANE Select
chr	chr9
start	39064710
end	39288167
strand	-
ver	v1.2
region	chr9:39064710-39288167
region5000	chr9:39059710-39293167
regionname0	CNTNAP3_chr9_39064710_39288167
regionname5000	CNTNAP3_chr9_39059710_39293167

ahapid	grch38/ chm13v2	alen	total	AFR	regionname	genename	aa	chr	start	end
a0001	0/0	1288	1	1	CNTNAP3_chr9_39059710_39293167	CNTNAP3	copy fasta	chr9	39059710	39293167
a0002	0/0	1288	1	1	CNTNAP3_chr9_39059710_39293167	CNTNAP3	copy fasta	chr9	39059710	39293167
a0003	1/0	1288	1	0	CNTNAP3_chr9_39059710_39293167	CNTNAP3	copy fasta	chr9	39059710	39293167
a0004	0/1	1288	1	0	CNTNAP3_chr9_39059710_39293167	CNTNAP3	copy fasta	chr9	39059710	39293167

chapid	grch38/ chm13v2	clen	total	AFR	regionname	genename	cseq	chr	start	end
c0001	0/0	3867	1	1	CNTNAP3_chr9_39059710_39293167	CNTNAP3	copy fasta	chr9	39059710	39293167
c0002	0/1	3867	1	0	CNTNAP3_chr9_39059710_39293167	CNTNAP3	copy fasta	chr9	39059710	39293167
c0003	0/0	3867	1	1	CNTNAP3_chr9_39059710_39293167	CNTNAP3	copy fasta	chr9	39059710	39293167
c0004	1/0	3867	1	0	CNTNAP3_chr9_39059710_39293167	CNTNAP3	copy fasta	chr9	39059710	39293167

thapid	grch38 chm13v2	tlen	total	AFR	regionname	genename	tseq	chr	start	end
t0001	0/1	9284	1	0	CNTNAP3_chr9_39059710_39293167	CNTNAP3	copy fasta	chr9	39059710	39293167
t0002	1/0	9284	1	0	CNTNAP3_chr9_39059710_39293167	CNTNAP3	copy fasta	chr9	39059710	39293167
t0003	0/0	9287	1	1	CNTNAP3_chr9_39059710_39293167	CNTNAP3	copy fasta	chr9	39059710	39293167
t0004	0/0	9274	1	1	CNTNAP3_chr9_39059710_39293167	CNTNAP3	copy fasta	chr9	39059710	39293167

ghapid	grch38/ chm13v2	total	AFR	regionname	genename	chr	start	end
g0001	0/0	1	1	CNTNAP3_chr9_39059710_39293167	CNTNAP3	chr9	39059710	39293167
g0002	0/0	1	1	CNTNAP3_chr9_39059710_39293167	CNTNAP3	chr9	39059710	39293167
g0003	0/1	1	0	CNTNAP3_chr9_39059710_39293167	CNTNAP3	chr9	39059710	39293167
g0004	1/0	1	0	CNTNAP3_chr9_39059710_39293167	CNTNAP3	chr9	39059710	39293167

achapid	grch38/ chm13v2	clen	total	AFR	regionname	genename	cseq	chr	start	end
a0001c0001	0/0	3867	1	1	CNTNAP3_chr9_39059710_39293167	CNTNAP3	copy fasta	chr9	39059710	39293167
a0002c0003	0/0	3867	1	1	CNTNAP3_chr9_39059710_39293167	CNTNAP3	copy fasta	chr9	39059710	39293167
a0003c0004	1/0	3867	1	0	CNTNAP3_chr9_39059710_39293167	CNTNAP3	copy fasta	chr9	39059710	39293167
a0004c0002	0/1	3867	1	0	CNTNAP3_chr9_39059710_39293167	CNTNAP3	copy fasta	chr9	39059710	39293167

acthapid	grch38 chm13v2	tlen	total	AFR	regionname	genename	tseq	chr	start	end
a0001c0001t0003	0/0	13153	1	1	CNTNAP3_chr9_39059710_39293167	CNTNAP3	copy fasta	chr9	39059710	39293167
a0002c0003t0004	0/0	13140	1	1	CNTNAP3_chr9_39059710_39293167	CNTNAP3	copy fasta	chr9	39059710	39293167
a0003c0004t0002	1/0	13150	1	0	CNTNAP3_chr9_39059710_39293167	CNTNAP3	copy fasta	chr9	39059710	39293167
a0004c0002t0001	0/1	13150	1	0	CNTNAP3_chr9_39059710_39293167	CNTNAP3	copy fasta	chr9	39059710	39293167

actghapid	grch38/ chm13v2	total	AFR	regionname	genename	chr	start	end
a0001c0001t0003g0002	0/0	1	1	CNTNAP3_chr9_39059710_39293167	CNTNAP3	chr9	39059710	39293167
a0002c0003t0004g0001	0/0	1	1	CNTNAP3_chr9_39059710_39293167	CNTNAP3	chr9	39059710	39293167
a0003c0004t0002g0004	1/0	1	0	CNTNAP3_chr9_39059710_39293167	CNTNAP3	chr9	39059710	39293167
a0004c0002t0001g0003	0/1	1	0	CNTNAP3_chr9_39059710_39293167	CNTNAP3	chr9	39059710	39293167

sampleid	ID haplotypeid	ahapid	chapid	thapid	ghapid	gpopname	popname	regionname	genename	chr	start	end
HG02109	hp1	a0002	c0003	t0004	g0001	AFR	ACB	CNTNAP3_chr9_39059710_39293167	CNTNAP3	chr9	39059710	39293167
HG02109	hp2	a0001	c0001	t0003	g0002	AFR	ACB	CNTNAP3_chr9_39059710_39293167	CNTNAP3	chr9	39059710	39293167
homoSapiens_chm13v2	hp1	a0004	c0002	t0001	g0003	REF	REF	CNTNAP3_chr9_39059710_39293167	CNTNAP3	chr9	39059710	39293167
homoSapiens_grch38	hp1	a0003	c0004	t0002	g0004	REF	REF	CNTNAP3_chr9_39059710_39293167	CNTNAP3	chr9	39059710	39293167

chr:pos	ref	alt	# # of ahapid:amino-acid(protein) level	ahapids	# # of haplotypeids	haplotypeids	annotation	impact	hgvs_c	hgvs_p	genename	geneid	featuretype	featureid	transcript_biotype	rank	cdna cdna pos length	cds cds pos length	aa aa pos length	chr	pos
chr9:39073961	T T	C C	1	a0001 a0001	1	HG02109.hp2 HG02109.hp2	missense_variant	MODERATE	c.3796A>G c.3796A>G	p.Ile1266Val p.Ile1266Val	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	3899/13150	3796/3867	1266/1288	chr9	39073961
chr9:39085811	T T	C C	2	a0001 a0002 a0001 a0002	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	missense_variant	MODERATE	c.3367A>G c.3367A>G	p.Thr1123Ala p.Thr1123Ala	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/24	3470/13150	3367/3867	1123/1288	chr9	39085811
chr9:39103746	C C	T T	1	a0002 a0002	1	HG02109.hp1 HG02109.hp1	missense_variant&splice_region_variant	MODERATE	c.2534G>A c.2534G>A	p.Arg845His p.Arg845His	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	16/24	2637/13150	2534/3867	845/1288	chr9	39103746
chr9:39118199	C C	A A	1	a0004 a0004	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	missense_variant	MODERATE	c.2141G>T c.2141G>T	p.Gly714Val p.Gly714Val	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	14/24	2244/13150	2141/3867	714/1288	chr9	39118199
chr9:39118208	G G	T T	2	a0001 a0004 a0001 a0004	2	HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	missense_variant	MODERATE	c.2132C>A c.2132C>A	p.Ser711Tyr p.Ser711Tyr	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	14/24	2235/13150	2132/3867	711/1288	chr9	39118208
chr9:39193247	C C	T T	1	a0001 a0001	1	HG02109.hp2 HG02109.hp2	missense_variant	MODERATE	c.419G>A c.419G>A	p.Ser140Asn p.Ser140Asn	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/24	522/13150	419/3867	140/1288	chr9	39193247

chr:pos	ref	alt	# # of chapid	chapids	# # of haplotypeids	haplotypeids	annotation	impact	hgvs_c	hgvs_p	genename	geneid	featuretype	featureid	transcript_biotype	rank	cdna cdna pos length	cds cds pos length	aa aa pos length	chr	pos
chr9:39085767	G G	A A	2	a0001c0001 a0002c0003 a0001c0001 a0002c0003	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	synonymous_variant	LOW	c.3411C>T c.3411C>T	p.Ala1137Ala p.Ala1137Ala	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/24	3514/13150	3411/3867	1137/1288	chr9	39085767
chr9:39102618	G G	A A	2	a0001c0001 a0002c0003 a0001c0001 a0002c0003	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	synonymous_variant	LOW	c.2634C>T c.2634C>T	p.His878His p.His878His	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	17/24	2737/13150	2634/3867	878/1288	chr9	39102618
chr9:39109203	G G	A A	1	a0001c0001 a0001c0001	1	HG02109.hp2 HG02109.hp2	synonymous_variant	LOW	c.2322C>T c.2322C>T	p.Ser774Ser p.Ser774Ser	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	15/24	2425/13150	2322/3867	774/1288	chr9	39109203
chr9:39118111	C C	T T	2	a0001c0001 a0002c0003 a0001c0001 a0002c0003	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	synonymous_variant	LOW	c.2229G>A c.2229G>A	p.Arg743Arg p.Arg743Arg	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	14/24	2332/13150	2229/3867	743/1288	chr9	39118111
chr9:39118210	A A	G G	2	a0001c0001 a0004c0002 a0001c0001 a0004c0002	2	HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	synonymous_variant	LOW	c.2130T>C c.2130T>C	p.Thr710Thr p.Thr710Thr	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	14/24	2233/13150	2130/3867	710/1288	chr9	39118210

chr:pos	ref	alt	# # of thapid:transcript level	thapids	# # of haplotypeids	haplotypeids	annotation	impact	hgvs_c	genename	geneid	featuretype	featureid	transcript_biotype	rank	distance	chr	pos
chr9:39064889	C C	T T	1	a0002c0003t0004 a0002c0003t0004	1	HG02109.hp1 HG02109.hp1	3_prime_UTR_variant	MODIFIER	c.9001G>A c.9001G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	9001	chr9	39064889
chr9:39065050	G G	A A	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.8840C>T c.8840C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	8840	chr9	39065050
chr9:39065217	T T	C C	1	a0002c0003t0004 a0002c0003t0004	1	HG02109.hp1 HG02109.hp1	3_prime_UTR_variant	MODIFIER	c.8673A>G c.8673A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	8673	chr9	39065217
chr9:39065485	T T	C C	1	a0002c0003t0004 a0002c0003t0004	1	HG02109.hp1 HG02109.hp1	3_prime_UTR_variant	MODIFIER	c.8405A>G c.8405A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	8405	chr9	39065485
chr9:39065516	C C	T T	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.8374G>A c.8374G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	8374	chr9	39065516
chr9:39066552	T T	C C	1	a0002c0003t0004 a0002c0003t0004	1	HG02109.hp1 HG02109.hp1	3_prime_UTR_variant	MODIFIER	c.7338A>G c.7338A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	7338	chr9	39066552
chr9:39066916	T T	C C	2	a0001c0001t0003 a0002c0003t0004 a0001c0001t0003 a0002c0003t0004	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.6974A>G c.6974A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	6974	chr9	39066916
chr9:39067490	C C	T T	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.6400G>A c.6400G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	6400	chr9	39067490
chr9:39067498	T T	C C	1	a0002c0003t0004 a0002c0003t0004	1	HG02109.hp1 HG02109.hp1	3_prime_UTR_variant	MODIFIER	c.6392A>G c.6392A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	6392	chr9	39067498
chr9:39067863	C C	T T	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.6027G>A c.6027G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	6027	chr9	39067863
chr9:39067973	A A	G G	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.5917T>C c.5917T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	5917	chr9	39067973
chr9:39068243	C C	CAAAAAAA others(6): Show CAAAAAAAAAAAAA	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.5634_5646dupTTTT others(9): Show c.5634_5646dupTTTTTTTTTTTTT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	5646	chr9	39068243
chr9:39068277	A A	G G	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.5613T>C c.5613T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	5613	chr9	39068277
chr9:39068432	T T	A A	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.5458A>T c.5458A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	5458	chr9	39068432
chr9:39068620	C C	T T	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.5270G>A c.5270G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	5270	chr9	39068620
chr9:39068764	C C	T T	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.5126G>A c.5126G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	5126	chr9	39068764
chr9:39068906	G G	A A	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.4984C>T c.4984C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	4984	chr9	39068906
chr9:39069240	T T	C C	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.4650A>G c.4650A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	4650	chr9	39069240
chr9:39069298	G G	A A	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.4592C>T c.4592C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	4592	chr9	39069298
chr9:39069474	A A	G G	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.4416T>C c.4416T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	4416	chr9	39069474
chr9:39069555	A A	G G	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.4335T>C c.4335T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	4335	chr9	39069555
chr9:39069649	G G	A A	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.4241C>T c.4241C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	4241	chr9	39069649
chr9:39069835	C C	T T	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.4055G>A c.4055G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	4055	chr9	39069835
chr9:39069940	C C	A A	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.3950G>T c.3950G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	3950	chr9	39069940
chr9:39070088	T T	C C	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.3802A>G c.3802A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	3802	chr9	39070088
chr9:39070169	T T	C C	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.3721A>G c.3721A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	3721	chr9	39070169
chr9:39070385	T T	C C	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.3505A>G c.3505A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	3505	chr9	39070385
chr9:39070474	T T	C C	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.3416A>G c.3416A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	3416	chr9	39070474
chr9:39071272	G G	C C	2	a0001c0001t0003 a0002c0003t0004 a0001c0001t0003 a0002c0003t0004	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.2618C>G c.2618C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	2618	chr9	39071272
chr9:39071322	T T	G G	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.2568A>C c.2568A>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	2568	chr9	39071322
chr9:39071356	G G	A A	1	a0002c0003t0004 a0002c0003t0004	1	HG02109.hp1 HG02109.hp1	3_prime_UTR_variant	MODIFIER	c.2534C>T c.2534C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	2534	chr9	39071356
chr9:39071706	T T	C C	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.2184A>G c.2184A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	2184	chr9	39071706
chr9:39072240	GAATTTCC others(3): Show GAATTTCCATA	G G	2	a0001c0001t0003 a0002c0003t0004 a0001c0001t0003 a0002c0003t0004	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.1640_1649delTATG others(6): Show c.1640_1649delTATGGAAATT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	1640	chr9	39072240
chr9:39072252	C C	G G	2	a0001c0001t0003 a0002c0003t0004 a0001c0001t0003 a0002c0003t0004	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.1638G>C c.1638G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	1638	chr9	39072252
chr9:39072460	C C	T T	1	a0001c0001t0003 a0001c0001t0003	1	HG02109.hp2 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.1430G>A c.1430G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	1430	chr9	39072460
chr9:39072669	T T	C C	2	a0001c0001t0003 a0002c0003t0004 a0001c0001t0003 a0002c0003t0004	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	3_prime_UTR_variant	MODIFIER	c.1221A>G c.1221A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	24/24	1221	chr9	39072669
chr9:39288167	C C	T T	1	a0004c0002t0001 a0004c0002t0001	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	5_prime_UTR_variant	MODIFIER	c.-103G>A c.-103G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/24	103	chr9	39288167

chr:pos	ref	alt	# # of ghapid:genebody level	ghapids	# # of haplotypeids	haplotypeids	annotation	impact	hgvs_c	genename	geneid	featuretype	featureid	genebody_biotype	rank	chr	pos
chr9:39074386	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.3746-375A>G c.3746-375A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	23/23	chr9	39074386
chr9:39074417	A A	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.3746-406T>G c.3746-406T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	23/23	chr9	39074417
chr9:39074742	T T	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.3746-731A>T c.3746-731A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	23/23	chr9	39074742
chr9:39074912	G G	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.3746-901C>A c.3746-901C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	23/23	chr9	39074912
chr9:39075019	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.3746-1008G>A c.3746-1008G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	23/23	chr9	39075019
chr9:39076026	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.3746-2015G>A c.3746-2015G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	23/23	chr9	39076026
chr9:39076074	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.3746-2063C>T c.3746-2063C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	23/23	chr9	39076074
chr9:39076402	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3745+1983G>A c.3745+1983G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	23/23	chr9	39076402
chr9:39076634	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.3745+1751T>C c.3745+1751T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	23/23	chr9	39076634
chr9:39076690	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.3745+1695G>A c.3745+1695G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	23/23	chr9	39076690
chr9:39076726	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.3745+1659A>G c.3745+1659A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	23/23	chr9	39076726
chr9:39076954	T T	TCAAA TCAAA	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3745+1427_3745+143 others(8): Show c.3745+1427_3745+1430dupTTTG	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	23/23	chr9	39076954
chr9:39077325	G G	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.3745+1060C>G c.3745+1060C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	23/23	chr9	39077325
chr9:39077414	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3745+971T>C c.3745+971T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	23/23	chr9	39077414
chr9:39077479	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.3745+906G>A c.3745+906G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	23/23	chr9	39077479
chr9:39077559	AAAACAAA others(9): Show AAAACAAACAAACAAAC	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.3745+810_3745+825d others(18): Show c.3745+810_3745+825delGTTTGTTTGTTTGTTT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	23/23	chr9	39077559
chr9:39078963	A A	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.3443-43T>G c.3443-43T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39078963
chr9:39078978	C C	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.3443-58G>C c.3443-58G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39078978
chr9:39079353	G G	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.3443-433C>A c.3443-433C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39079353
chr9:39079614	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.3443-694T>C c.3443-694T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39079614
chr9:39079676	C C	CAT CAT	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-757_3443-756i others(4): Show c.3443-757_3443-756insAT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39079676
chr9:39079677	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-757A>G c.3443-757A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39079677
chr9:39079684	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-764G>A c.3443-764G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39079684
chr9:39079699	G G	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-779C>G c.3443-779C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39079699
chr9:39079738	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-818C>T c.3443-818C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39079738
chr9:39079784	G G	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.3443-864C>A c.3443-864C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39079784
chr9:39079808	A A	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.3443-888T>G c.3443-888T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39079808
chr9:39080311	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-1391C>T c.3443-1391C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39080311
chr9:39080505	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-1585A>G c.3443-1585A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39080505
chr9:39080617	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-1697T>C c.3443-1697T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39080617
chr9:39080621	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-1701A>G c.3443-1701A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39080621
chr9:39080722	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-1802G>A c.3443-1802G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39080722
chr9:39080755	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-1835T>C c.3443-1835T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39080755
chr9:39080869	T T	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-1949A>C c.3443-1949A>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39080869
chr9:39080916	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-1996G>A c.3443-1996G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39080916
chr9:39081030	G G	GAGT GAGT	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-2111_3443-211 others(7): Show c.3443-2111_3443-2110insACT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39081030
chr9:39081120	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-2200T>C c.3443-2200T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39081120
chr9:39081197	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-2277T>C c.3443-2277T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39081197
chr9:39081438	A A	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.3443-2518T>C c.3443-2518T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39081438
chr9:39081483	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-2563G>A c.3443-2563G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39081483
chr9:39081489	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-2569G>A c.3443-2569G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39081489
chr9:39081588	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-2668G>A c.3443-2668G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39081588
chr9:39081848	G G	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-2928C>A c.3443-2928C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39081848
chr9:39081849	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-2929A>G c.3443-2929A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39081849
chr9:39081853	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-2933G>A c.3443-2933G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39081853
chr9:39081863	G G	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-2943C>G c.3443-2943C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39081863
chr9:39081894	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-2974G>A c.3443-2974G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39081894
chr9:39081906	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-2986T>C c.3443-2986T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39081906
chr9:39081914	T T	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-2994A>T c.3443-2994A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39081914
chr9:39081943	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.3443-3023G>A c.3443-3023G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39081943
chr9:39081953	G G	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.3443-3033C>T c.3443-3033C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39081953
chr9:39082076	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-3156T>C c.3443-3156T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39082076
chr9:39082099	C C	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-3179G>T c.3443-3179G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39082099
chr9:39082201	A A	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-3281T>G c.3443-3281T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39082201
chr9:39082203	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-3283A>G c.3443-3283A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39082203
chr9:39082305	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3443-3385A>G c.3443-3385A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39082305
chr9:39082461	G G	GA GA	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+3274dupT c.3442+3274dupT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39082461
chr9:39082700	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+3036G>A c.3442+3036G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39082700
chr9:39082860	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+2876G>A c.3442+2876G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39082860
chr9:39082885	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+2851C>T c.3442+2851C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39082885
chr9:39083060	TA TA	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+2675delT c.3442+2675delT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39083060
chr9:39083134	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+2602A>G c.3442+2602A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39083134
chr9:39083501	C C	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+2235G>T c.3442+2235G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39083501
chr9:39083531	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+2205A>G c.3442+2205A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39083531
chr9:39083793	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+1943G>A c.3442+1943G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39083793
chr9:39083837	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+1899A>G c.3442+1899A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39083837
chr9:39083998	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+1738T>C c.3442+1738T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39083998
chr9:39084278	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.3442+1458G>A c.3442+1458G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39084278
chr9:39084337	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+1399G>A c.3442+1399G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39084337
chr9:39084385	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+1351C>T c.3442+1351C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39084385
chr9:39084474	G G	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.3442+1262C>T c.3442+1262C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39084474
chr9:39084743	A A	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.3442+993T>C c.3442+993T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39084743
chr9:39084854	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+882T>C c.3442+882T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39084854
chr9:39084976	G G	GT GT	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+759dupA c.3442+759dupA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39084976
chr9:39085043	TTAAAG TTAAAG	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+688_3442+692d others(7): Show c.3442+688_3442+692delCTTTA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39085043
chr9:39085085	GTTT GTTT	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+648_3442+650d others(5): Show c.3442+648_3442+650delAAA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39085085
chr9:39085156	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+580T>C c.3442+580T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39085156
chr9:39085204	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+532C>T c.3442+532C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39085204
chr9:39085208	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+528G>A c.3442+528G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39085208
chr9:39085466	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+270T>C c.3442+270T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39085466
chr9:39085480	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.3442+256C>T c.3442+256C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39085480
chr9:39085561	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.3442+175A>G c.3442+175A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39085561
chr9:39085566	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.3442+170G>A c.3442+170G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39085566
chr9:39085570	G G	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+166C>G c.3442+166C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39085570
chr9:39085706	A A	AGATTT AGATTT	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3442+29_3442+30ins others(5): Show c.3442+29_3442+30insAAATC	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	21/23	chr9	39085706
chr9:39086245	T T	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.3355-422A>T c.3355-422A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	20/23	chr9	39086245
chr9:39086375	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3354+341C>T c.3354+341C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	20/23	chr9	39086375
chr9:39086452	T T	TAA TAA	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3354+263_3354+264i others(4): Show c.3354+263_3354+264insTT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	20/23	chr9	39086452
chr9:39086634	A A	ATATT ATATT	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3354+78_3354+81dup others(4): Show c.3354+78_3354+81dupAATA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	20/23	chr9	39086634
chr9:39086690	T T	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.3354+26A>C c.3354+26A>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	20/23	chr9	39086690
chr9:39086698	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3354+18A>G c.3354+18A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	20/23	chr9	39086698
chr9:39086943	C C	T T	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.3221-94G>A c.3221-94G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	19/23	chr9	39086943
chr9:39087060	G G	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3221-211C>A c.3221-211C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	19/23	chr9	39087060
chr9:39087272	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3221-423G>A c.3221-423G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	19/23	chr9	39087272
chr9:39087489	T T	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.3221-640A>C c.3221-640A>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	19/23	chr9	39087489
chr9:39087501	G G	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3221-652C>A c.3221-652C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	19/23	chr9	39087501
chr9:39087732	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3220+691A>G c.3220+691A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	19/23	chr9	39087732
chr9:39087737	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.3220+686A>G c.3220+686A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	19/23	chr9	39087737
chr9:39087778	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3220+645T>C c.3220+645T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	19/23	chr9	39087778
chr9:39087788	C C	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3220+635G>T c.3220+635G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	19/23	chr9	39087788
chr9:39087860	T T	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.3220+563A>T c.3220+563A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	19/23	chr9	39087860
chr9:39087877	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3220+546T>C c.3220+546T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	19/23	chr9	39087877
chr9:39087916	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3220+507A>G c.3220+507A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	19/23	chr9	39087916
chr9:39088266	AC AC	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.3220+156delG c.3220+156delG	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	19/23	chr9	39088266
chr9:39088728	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-81T>C c.2996-81T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39088728
chr9:39088862	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-215T>C c.2996-215T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39088862
chr9:39088865	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2996-218A>G c.2996-218A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39088865
chr9:39089188	A A	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2996-541T>A c.2996-541T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39089188
chr9:39089261	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-614G>A c.2996-614G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39089261
chr9:39089387	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2996-740A>G c.2996-740A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39089387
chr9:39089393	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-746C>T c.2996-746C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39089393
chr9:39090113	G G	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2996-1466C>T c.2996-1466C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39090113
chr9:39090310	C C	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-1663G>T c.2996-1663G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39090310
chr9:39090376	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2996-1729C>T c.2996-1729C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39090376
chr9:39090387	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-1740C>T c.2996-1740C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39090387
chr9:39090523	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-1876A>G c.2996-1876A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39090523
chr9:39090556	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-1909A>G c.2996-1909A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39090556
chr9:39090746	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2996-2099T>C c.2996-2099T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39090746
chr9:39090908	A A	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-2261T>A c.2996-2261T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39090908
chr9:39090964	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-2317G>A c.2996-2317G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39090964
chr9:39091171	C C	CT CT	2	a0001c0001t0003g0002 a0004c0002t0001g0003 a0001c0001t0003g0002 a0004c0002t0001g0003	2	HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.2996-2525dupA c.2996-2525dupA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39091171
chr9:39091968	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-3321A>G c.2996-3321A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39091968
chr9:39092368	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-3721C>T c.2996-3721C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39092368
chr9:39092439	A A	ATGT ATGT	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-3795_2996-379 others(7): Show c.2996-3795_2996-3793dupACA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39092439
chr9:39092545	TTA TTA	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-3900_2996-389 others(6): Show c.2996-3900_2996-3899delTA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39092545
chr9:39092556	T T	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-3909A>T c.2996-3909A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39092556
chr9:39092785	T T	TTATTC TTATTC	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-4139_2996-413 others(9): Show c.2996-4139_2996-4138insGAATA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39092785
chr9:39092798	T T	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-4151A>T c.2996-4151A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39092798
chr9:39092938	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-4291C>T c.2996-4291C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39092938
chr9:39092956	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2996-4309A>G c.2996-4309A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39092956
chr9:39092969	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-4322C>T c.2996-4322C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39092969
chr9:39093183	G G	A A	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.2996-4536C>T c.2996-4536C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39093183
chr9:39093194	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-4547C>T c.2996-4547C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39093194
chr9:39093202	TTTAATA TTTAATA	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-4561_2996-455 others(10): Show c.2996-4561_2996-4556delTATTAA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39093202
chr9:39093394	TG TG	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-4748delC c.2996-4748delC	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39093394
chr9:39093429	C C	CATTA CATTA	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-4786_2996-478 others(8): Show c.2996-4786_2996-4783dupTAAT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39093429
chr9:39093572	C C	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-4925G>C c.2996-4925G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39093572
chr9:39093705	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2996-5058G>A c.2996-5058G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39093705
chr9:39093921	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-5274G>A c.2996-5274G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39093921
chr9:39094035	TTTTA TTTTA	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2996-5392_2996-538 others(8): Show c.2996-5392_2996-5389delTAAA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39094035
chr9:39094505	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+5406T>C c.2995+5406T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39094505
chr9:39094572	CT CT	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+5338delA c.2995+5338delA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39094572
chr9:39094928	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+4983A>G c.2995+4983A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39094928
chr9:39094987	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+4924A>G c.2995+4924A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39094987
chr9:39095041	GTCTT GTCTT	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+4866_2995+486 others(8): Show c.2995+4866_2995+4869delAAGA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39095041
chr9:39095441	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+4470T>C c.2995+4470T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39095441
chr9:39095461	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+4450C>T c.2995+4450C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39095461
chr9:39095476	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+4435C>T c.2995+4435C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39095476
chr9:39095496	C C	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2995+4415G>C c.2995+4415G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39095496
chr9:39095564	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2995+4347G>A c.2995+4347G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39095564
chr9:39095617	G G	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+4294C>A c.2995+4294C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39095617
chr9:39095682	C C	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+4229G>C c.2995+4229G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39095682
chr9:39095698	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+4213A>G c.2995+4213A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39095698
chr9:39095710	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+4201A>G c.2995+4201A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39095710
chr9:39095795	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+4116A>G c.2995+4116A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39095795
chr9:39095966	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+3945A>G c.2995+3945A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39095966
chr9:39096009	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+3902A>G c.2995+3902A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39096009
chr9:39096070	CTCCTCTG others(218): Show CTCCTCTGTGCTGTTTTTTTGTAATATATTTCTATAGGCCCAACAATGAA AATATATACATTATATATTTGTATATTCTCTATTATAGTTTTATACATTG CTTTTTAAAATAGTTAAGCACTGAAAAGGGTAAGAAATATGACATTATAC TTTCTTTTATAATTACCTGCACACTTACCTTTATTAGTGCTATTTGTTTT TTGTGTGTAGATTCAGATTATTGTCT	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+3616_2995+384 others(4): Show c.2995+3616_2995+3840del	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39096070
chr9:39096362	G G	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+3549C>G c.2995+3549C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39096362
chr9:39096372	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+3539A>G c.2995+3539A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39096372
chr9:39096525	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+3386G>A c.2995+3386G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39096525
chr9:39096579	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+3332C>T c.2995+3332C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39096579
chr9:39096631	C C	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2995+3280G>T c.2995+3280G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39096631
chr9:39096645	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+3266G>A c.2995+3266G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39096645
chr9:39096679	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+3232T>C c.2995+3232T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39096679
chr9:39096714	T T	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+3197A>T c.2995+3197A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39096714
chr9:39096890	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+3021A>G c.2995+3021A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39096890
chr9:39096929	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+2982C>T c.2995+2982C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39096929
chr9:39096985	GTATTTTC others(9): Show GTATTTTCAATTACGTA	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+2910_2995+292 others(20): Show c.2995+2910_2995+2925delTACGTAATTGAAAATA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39096985
chr9:39097182	A A	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+2729T>G c.2995+2729T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39097182
chr9:39097322	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+2589C>T c.2995+2589C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39097322
chr9:39097402	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2995+2509C>T c.2995+2509C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39097402
chr9:39097523	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+2388G>A c.2995+2388G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39097523
chr9:39097694	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+2217G>A c.2995+2217G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39097694
chr9:39097761	T T	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+2150A>T c.2995+2150A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39097761
chr9:39097852	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+2059G>A c.2995+2059G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39097852
chr9:39098017	T T	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+1894A>T c.2995+1894A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39098017
chr9:39098076	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2995+1835G>A c.2995+1835G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39098076
chr9:39098151	G G	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+1760C>A c.2995+1760C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39098151
chr9:39098213	A A	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+1698T>G c.2995+1698T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39098213
chr9:39098255	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+1656T>C c.2995+1656T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39098255
chr9:39098308	C C	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2995+1603G>T c.2995+1603G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39098308
chr9:39098336	C C	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+1575G>T c.2995+1575G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39098336
chr9:39098701	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+1210C>T c.2995+1210C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39098701
chr9:39099535	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2995+376C>T c.2995+376C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39099535
chr9:39099613	A A	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2995+298T>G c.2995+298T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	18/23	chr9	39099613
chr9:39100341	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2756-191G>A c.2756-191G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	17/23	chr9	39100341
chr9:39100480	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2756-330G>A c.2756-330G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	17/23	chr9	39100480
chr9:39100609	T T	TA TA	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2756-460dupT c.2756-460dupT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	17/23	chr9	39100609
chr9:39100691	A A	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2756-541T>A c.2756-541T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	17/23	chr9	39100691
chr9:39101043	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2756-893G>A c.2756-893G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	17/23	chr9	39101043
chr9:39101113	T T	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2756-963A>T c.2756-963A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	17/23	chr9	39101113
chr9:39101261	A A	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2756-1111T>G c.2756-1111T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	17/23	chr9	39101261
chr9:39101327	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2755+1170C>T c.2755+1170C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	17/23	chr9	39101327
chr9:39101461	T T	TAGCAAAA others(16): Show TAGCAAAATATATTTTTCCCAAGG	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2755+1035_2755+103 others(27): Show c.2755+1035_2755+1036insCCTTGGGAAAAATATATTTTGCT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	17/23	chr9	39101461
chr9:39101569	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2755+928T>C c.2755+928T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	17/23	chr9	39101569
chr9:39101845	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2755+652C>T c.2755+652C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	17/23	chr9	39101845
chr9:39101924	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2755+573A>G c.2755+573A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	17/23	chr9	39101924
chr9:39102061	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2755+436A>G c.2755+436A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	17/23	chr9	39102061
chr9:39102077	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2755+420G>A c.2755+420G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	17/23	chr9	39102077
chr9:39102205	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2755+292C>T c.2755+292C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	17/23	chr9	39102205
chr9:39102254	T T	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2755+243A>T c.2755+243A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	17/23	chr9	39102254
chr9:39102897	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2537-182C>T c.2537-182C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	16/23	chr9	39102897
chr9:39102998	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2537-283A>G c.2537-283A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	16/23	chr9	39102998
chr9:39103056	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2537-341G>A c.2537-341G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	16/23	chr9	39103056
chr9:39103268	C C	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2536+476G>T c.2536+476G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	16/23	chr9	39103268
chr9:39103303	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2536+441A>G c.2536+441A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	16/23	chr9	39103303
chr9:39103347	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2536+397G>A c.2536+397G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	16/23	chr9	39103347
chr9:39103386	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2536+358T>C c.2536+358T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	16/23	chr9	39103386
chr9:39104339	C C	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2366-425G>C c.2366-425G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	15/23	chr9	39104339
chr9:39104477	T T	TAC TAC	2	a0001c0001t0003g0002 a0004c0002t0001g0003 a0001c0001t0003g0002 a0004c0002t0001g0003	2	HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.2366-565_2366-564d others(4): Show c.2366-565_2366-564dupGT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	15/23	chr9	39104477
chr9:39104477	T T	TACACATA others(3): Show TACACATACAC	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2366-564_2366-563i others(12): Show c.2366-564_2366-563insGTGTATGTGT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	15/23	chr9	39104477
chr9:39104550	A A	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2366-636T>G c.2366-636T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	15/23	chr9	39104550
chr9:39105382	A A	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2366-1468T>C c.2366-1468T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	15/23	chr9	39105382
chr9:39105440	C C	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2366-1526G>C c.2366-1526G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	15/23	chr9	39105440
chr9:39108524	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2365+636G>A c.2365+636G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	15/23	chr9	39108524
chr9:39110268	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2238-981G>A c.2238-981G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	14/23	chr9	39110268
chr9:39112045	T T	TTCTC TTCTC	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2238-2759_2238-275 others(8): Show c.2238-2759_2238-2758insGAGA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	14/23	chr9	39112045
chr9:39112967	T T	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2238-3680A>C c.2238-3680A>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	14/23	chr9	39112967
chr9:39114023	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2237+4080A>G c.2237+4080A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	14/23	chr9	39114023
chr9:39114029	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2237+4074G>A c.2237+4074G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	14/23	chr9	39114029
chr9:39114033	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2237+4070A>G c.2237+4070A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	14/23	chr9	39114033
chr9:39114035	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2237+4068A>G c.2237+4068A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	14/23	chr9	39114035
chr9:39114055	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2237+4048G>A c.2237+4048G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	14/23	chr9	39114055
chr9:39114057	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2237+4046A>G c.2237+4046A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	14/23	chr9	39114057
chr9:39114069	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2237+4034G>A c.2237+4034G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	14/23	chr9	39114069
chr9:39114079	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2237+4024A>G c.2237+4024A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	14/23	chr9	39114079
chr9:39116585	G G	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2237+1518C>G c.2237+1518C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	14/23	chr9	39116585
chr9:39116719	G G	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2237+1384C>G c.2237+1384C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	14/23	chr9	39116719
chr9:39117970	A A	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2237+133T>A c.2237+133T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	14/23	chr9	39117970
chr9:39118937	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2081-678G>A c.2081-678G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39118937
chr9:39119176	G G	C C	2	a0001c0001t0003g0002 a0004c0002t0001g0003 a0001c0001t0003g0002 a0004c0002t0001g0003	2	HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.2081-917C>G c.2081-917C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39119176
chr9:39119176	G G	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2081-917C>A c.2081-917C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39119176
chr9:39120385	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2081-2126G>A c.2081-2126G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39120385
chr9:39120507	T T	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2081-2248A>T c.2081-2248A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39120507
chr9:39120737	G G	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2081-2478C>G c.2081-2478C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39120737
chr9:39121444	G G	A A	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.2081-3185C>T c.2081-3185C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39121444
chr9:39121526	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2081-3267G>A c.2081-3267G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39121526
chr9:39122121	G G	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2081-3862C>T c.2081-3862C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39122121
chr9:39122597	G G	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2081-4338C>G c.2081-4338C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39122597
chr9:39122890	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2081-4631A>G c.2081-4631A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39122890
chr9:39123012	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2081-4753G>A c.2081-4753G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39123012
chr9:39123059	A A	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2081-4800T>C c.2081-4800T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39123059
chr9:39123091	AT AT	A A	2	a0001c0001t0003g0002 a0004c0002t0001g0003 a0001c0001t0003g0002 a0004c0002t0001g0003	2	HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.2081-4833delA c.2081-4833delA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39123091
chr9:39123447	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2081-5188G>A c.2081-5188G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39123447
chr9:39123672	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2081-5413G>A c.2081-5413G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39123672
chr9:39123815	A A	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2081-5556T>A c.2081-5556T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39123815
chr9:39124722	G G	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2081-6463C>A c.2081-6463C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39124722
chr9:39125626	A A	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2080+7306T>G c.2080+7306T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39125626
chr9:39125759	G G	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2080+7173C>G c.2080+7173C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39125759
chr9:39126277	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2080+6655T>C c.2080+6655T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39126277
chr9:39126691	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2080+6241G>A c.2080+6241G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39126691
chr9:39126712	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2080+6220G>A c.2080+6220G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39126712
chr9:39128225	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2080+4707A>G c.2080+4707A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39128225
chr9:39128726	C C	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2080+4206G>T c.2080+4206G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39128726
chr9:39128880	G G	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2080+4052C>A c.2080+4052C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39128880
chr9:39129186	A A	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2080+3746T>G c.2080+3746T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39129186
chr9:39130098	A A	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2080+2834T>C c.2080+2834T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39130098
chr9:39130597	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2080+2335A>G c.2080+2335A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39130597
chr9:39130706	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2080+2226T>C c.2080+2226T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39130706
chr9:39131292	A A	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2080+1640T>C c.2080+1640T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39131292
chr9:39131871	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.2080+1061T>C c.2080+1061T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39131871
chr9:39131903	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2080+1029G>A c.2080+1029G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39131903
chr9:39131976	A A	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2080+956T>A c.2080+956T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39131976
chr9:39132001	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.2080+931G>A c.2080+931G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39132001
chr9:39132129	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2080+803A>G c.2080+803A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39132129
chr9:39132250	A A	G G	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.2080+682T>C c.2080+682T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39132250
chr9:39132602	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2080+330A>G c.2080+330A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39132602
chr9:39132743	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.2080+189G>A c.2080+189G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	13/23	chr9	39132743
chr9:39133171	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.1877-36T>C c.1877-36T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	12/23	chr9	39133171
chr9:39133494	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1877-359A>G c.1877-359A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	12/23	chr9	39133494
chr9:39135025	C C	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1877-1890G>C c.1877-1890G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	12/23	chr9	39135025
chr9:39135286	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1877-2151A>G c.1877-2151A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	12/23	chr9	39135286
chr9:39135427	A A	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1877-2292T>A c.1877-2292T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	12/23	chr9	39135427
chr9:39135447	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.1877-2312A>G c.1877-2312A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	12/23	chr9	39135447
chr9:39137187	T T	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1876+3332A>C c.1876+3332A>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	12/23	chr9	39137187
chr9:39137377	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1876+3142A>G c.1876+3142A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	12/23	chr9	39137377
chr9:39138073	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1876+2446A>G c.1876+2446A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	12/23	chr9	39138073
chr9:39138403	C C	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1876+2116G>C c.1876+2116G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	12/23	chr9	39138403
chr9:39138480	G G	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1876+2039C>G c.1876+2039C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	12/23	chr9	39138480
chr9:39138554	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1876+1965G>A c.1876+1965G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	12/23	chr9	39138554
chr9:39138570	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1876+1949A>G c.1876+1949A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	12/23	chr9	39138570
chr9:39138734	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1876+1785T>C c.1876+1785T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	12/23	chr9	39138734
chr9:39139786	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.1876+733A>G c.1876+733A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	12/23	chr9	39139786
chr9:39139876	C C	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1876+643G>C c.1876+643G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	12/23	chr9	39139876
chr9:39140230	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1876+289A>G c.1876+289A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	12/23	chr9	39140230
chr9:39140803	T T	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1757-165A>T c.1757-165A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	11/23	chr9	39140803
chr9:39141078	C C	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1757-440G>T c.1757-440G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	11/23	chr9	39141078
chr9:39141161	A A	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1757-523T>A c.1757-523T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	11/23	chr9	39141161
chr9:39142014	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1757-1376T>C c.1757-1376T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	11/23	chr9	39142014
chr9:39142276	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1757-1638C>T c.1757-1638C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	11/23	chr9	39142276
chr9:39142564	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1756+1676G>A c.1756+1676G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	11/23	chr9	39142564
chr9:39142650	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1756+1590G>A c.1756+1590G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	11/23	chr9	39142650
chr9:39142752	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1756+1488T>C c.1756+1488T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	11/23	chr9	39142752
chr9:39143169	T T	TCA TCA	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.1756+1069_1756+107 others(6): Show c.1756+1069_1756+1070dupTG	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	11/23	chr9	39143169
chr9:39143217	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1756+1023C>T c.1756+1023C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	11/23	chr9	39143217
chr9:39143218	G G	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1756+1022C>T c.1756+1022C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	11/23	chr9	39143218
chr9:39143330	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1756+910G>A c.1756+910G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	11/23	chr9	39143330
chr9:39144860	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1650-514G>A c.1650-514G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39144860
chr9:39145021	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1650-675A>G c.1650-675A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39145021
chr9:39145457	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1650-1111G>A c.1650-1111G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39145457
chr9:39145558	G G	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1650-1212C>A c.1650-1212C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39145558
chr9:39145565	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.1650-1219C>T c.1650-1219C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39145565
chr9:39145670	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1650-1324G>A c.1650-1324G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39145670
chr9:39145696	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1650-1350C>T c.1650-1350C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39145696
chr9:39145755	C C	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1650-1409G>T c.1650-1409G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39145755
chr9:39145817	C C	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1650-1471G>C c.1650-1471G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39145817
chr9:39145826	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1650-1480A>G c.1650-1480A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39145826
chr9:39145905	C C	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1650-1559G>C c.1650-1559G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39145905
chr9:39145905	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1650-1559G>A c.1650-1559G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39145905
chr9:39145913	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1650-1567A>G c.1650-1567A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39145913
chr9:39146013	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.1650-1667T>C c.1650-1667T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39146013
chr9:39146034	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.1650-1688G>A c.1650-1688G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39146034
chr9:39146127	G G	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1650-1781C>G c.1650-1781C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39146127
chr9:39146293	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1650-1947C>T c.1650-1947C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39146293
chr9:39146411	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1650-2065G>A c.1650-2065G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39146411
chr9:39147048	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1650-2702C>T c.1650-2702C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39147048
chr9:39147108	G G	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1649+2698C>T c.1649+2698C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39147108
chr9:39147266	T T	TTTTG TTTTG	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.1649+2536_1649+253 others(8): Show c.1649+2536_1649+2539dupCAAA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39147266
chr9:39147535	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1649+2271C>T c.1649+2271C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39147535
chr9:39147697	C C	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1649+2109G>C c.1649+2109G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39147697
chr9:39147718	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1649+2088A>G c.1649+2088A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39147718
chr9:39148165	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.1649+1641T>C c.1649+1641T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39148165
chr9:39148526	CT CT	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.1649+1279delA c.1649+1279delA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39148526
chr9:39148761	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1649+1045T>C c.1649+1045T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39148761
chr9:39148772	T T	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1649+1034A>C c.1649+1034A>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39148772
chr9:39148820	G G	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1649+986C>G c.1649+986C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39148820
chr9:39149212	G G	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.1649+594C>A c.1649+594C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39149212
chr9:39149372	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1649+434G>A c.1649+434G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39149372
chr9:39149532	A A	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1649+274T>C c.1649+274T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39149532
chr9:39149602	A A	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.1649+204T>G c.1649+204T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	10/23	chr9	39149602
chr9:39150261	G G	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1478-284C>G c.1478-284C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39150261
chr9:39150994	C C	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1478-1017G>C c.1478-1017G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39150994
chr9:39151008	G G	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1478-1031C>G c.1478-1031C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39151008
chr9:39151339	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1478-1362G>A c.1478-1362G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39151339
chr9:39151566	A A	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1478-1589T>A c.1478-1589T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39151566
chr9:39151739	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1478-1762G>A c.1478-1762G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39151739
chr9:39151839	C C	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1478-1862G>C c.1478-1862G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39151839
chr9:39152018	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.1478-2041G>A c.1478-2041G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39152018
chr9:39152162	A A	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1478-2185T>C c.1478-2185T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39152162
chr9:39152694	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1478-2717G>A c.1478-2717G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39152694
chr9:39153035	A A	G G	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.1478-3058T>C c.1478-3058T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39153035
chr9:39153661	C C	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1478-3684G>C c.1478-3684G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39153661
chr9:39153904	T T	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1478-3927A>T c.1478-3927A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39153904
chr9:39154602	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1478-4625A>G c.1478-4625A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39154602
chr9:39154810	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1478-4833G>A c.1478-4833G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39154810
chr9:39155011	T T	C C	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.1478-5034A>G c.1478-5034A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39155011
chr9:39156173	C C	T T	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.1478-6196G>A c.1478-6196G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39156173
chr9:39156278	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1478-6301C>T c.1478-6301C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39156278
chr9:39156673	T T	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1478-6696A>C c.1478-6696A>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39156673
chr9:39157558	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1478-7581G>A c.1478-7581G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39157558
chr9:39157574	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1478-7597A>G c.1478-7597A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39157574
chr9:39158145	C C	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1477+7788G>T c.1477+7788G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39158145
chr9:39158214	A A	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1477+7719T>G c.1477+7719T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39158214
chr9:39158239	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1477+7694C>T c.1477+7694C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39158239
chr9:39158334	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.1477+7599G>A c.1477+7599G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39158334
chr9:39158455	A A	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1477+7478T>G c.1477+7478T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39158455
chr9:39159097	G G	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1477+6836C>T c.1477+6836C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39159097
chr9:39159330	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1477+6603G>A c.1477+6603G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39159330
chr9:39159479	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1477+6454A>G c.1477+6454A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39159479
chr9:39159512	T T	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1477+6421A>C c.1477+6421A>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39159512
chr9:39159633	TAGATAGA others(7): Show TAGATAGATAGATAG	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1477+6286_1477+629 others(18): Show c.1477+6286_1477+6299delCTATCTATCTATCT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39159633
chr9:39159651	G G	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1477+6282C>A c.1477+6282C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39159651
chr9:39159655	G G	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1477+6278C>A c.1477+6278C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39159655
chr9:39159663	G G	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1477+6270C>A c.1477+6270C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39159663
chr9:39159667	G G	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1477+6266C>A c.1477+6266C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39159667
chr9:39159671	G G	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1477+6262C>A c.1477+6262C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39159671
chr9:39159907	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1477+6026G>A c.1477+6026G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39159907
chr9:39162015	A A	AG AG	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.1477+3917dupC c.1477+3917dupC	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39162015
chr9:39162151	G G	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1477+3782C>G c.1477+3782C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39162151
chr9:39163460	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1477+2473T>C c.1477+2473T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39163460
chr9:39163556	G G	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1477+2377C>G c.1477+2377C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39163556
chr9:39163812	G G	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1477+2121C>T c.1477+2121C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39163812
chr9:39164646	G G	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1477+1287C>G c.1477+1287C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39164646
chr9:39164748	A A	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1477+1185T>A c.1477+1185T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	9/23	chr9	39164748
chr9:39167027	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1334-951T>C c.1334-951T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	8/23	chr9	39167027
chr9:39167221	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1334-1145T>C c.1334-1145T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	8/23	chr9	39167221
chr9:39167597	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1334-1521T>C c.1334-1521T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	8/23	chr9	39167597
chr9:39168006	G G	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1334-1930C>A c.1334-1930C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	8/23	chr9	39168006
chr9:39168016	G G	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1334-1940C>A c.1334-1940C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	8/23	chr9	39168016
chr9:39168022	G G	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1334-1946C>A c.1334-1946C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	8/23	chr9	39168022
chr9:39169030	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1333+2339T>C c.1333+2339T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	8/23	chr9	39169030
chr9:39169081	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1333+2288C>T c.1333+2288C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	8/23	chr9	39169081
chr9:39169176	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1333+2193G>A c.1333+2193G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	8/23	chr9	39169176
chr9:39169424	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1333+1945C>T c.1333+1945C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	8/23	chr9	39169424
chr9:39169730	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1333+1639G>A c.1333+1639G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	8/23	chr9	39169730
chr9:39170185	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1333+1184A>G c.1333+1184A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	8/23	chr9	39170185
chr9:39170999	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1333+370C>T c.1333+370C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	8/23	chr9	39170999
chr9:39173092	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.1072-1462G>A c.1072-1462G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	7/23	chr9	39173092
chr9:39173193	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.1072-1563C>T c.1072-1563C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	7/23	chr9	39173193
chr9:39173316	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1072-1686T>C c.1072-1686T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	7/23	chr9	39173316
chr9:39173586	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1072-1956A>G c.1072-1956A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	7/23	chr9	39173586
chr9:39173927	T T	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1071+2022A>C c.1071+2022A>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	7/23	chr9	39173927
chr9:39174028	G G	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1071+1921C>A c.1071+1921C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	7/23	chr9	39174028
chr9:39174793	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1071+1156C>T c.1071+1156C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	7/23	chr9	39174793
chr9:39175011	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1071+938G>A c.1071+938G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	7/23	chr9	39175011
chr9:39175135	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.1071+814C>T c.1071+814C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	7/23	chr9	39175135
chr9:39175265	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1071+684C>T c.1071+684C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	7/23	chr9	39175265
chr9:39175370	A A	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1071+579T>G c.1071+579T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	7/23	chr9	39175370
chr9:39175391	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.1071+558C>T c.1071+558C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	7/23	chr9	39175391
chr9:39177641	C C	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.743-139G>C c.743-139G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	5/23	chr9	39177641
chr9:39177736	A A	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.743-234T>A c.743-234T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	5/23	chr9	39177736
chr9:39177833	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.742+324A>G c.742+324A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	5/23	chr9	39177833
chr9:39177949	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.742+208A>G c.742+208A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	5/23	chr9	39177949
chr9:39178379	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-19C>T c.539-19C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39178379
chr9:39178417	C C	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-57G>T c.539-57G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39178417
chr9:39178560	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-200C>T c.539-200C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39178560
chr9:39178562	A A	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-202T>A c.539-202T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39178562
chr9:39179286	T T	TACACACA others(5): Show TACACACACACAC	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.539-938_539-927dup others(12): Show c.539-938_539-927dupGTGTGTGTGTGT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39179286
chr9:39179286	TACACACA others(4): Show TACACACACACA	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-937_539-927del others(11): Show c.539-937_539-927delTGTGTGTGTGT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39179286
chr9:39179286	TACACACA others(5): Show TACACACACACAC	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.539-938_539-927del others(12): Show c.539-938_539-927delGTGTGTGTGTGT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39179286
chr9:39179299	A A	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-939T>A c.539-939T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39179299
chr9:39179302	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-942G>A c.539-942G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39179302
chr9:39179492	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-1132A>G c.539-1132A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39179492
chr9:39180163	T T	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-1803A>T c.539-1803A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39180163
chr9:39181117	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-2757A>G c.539-2757A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39181117
chr9:39181123	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-2763T>C c.539-2763T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39181123
chr9:39181516	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.539-3156G>A c.539-3156G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39181516
chr9:39181838	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.539-3478G>A c.539-3478G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39181838
chr9:39181958	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-3598C>T c.539-3598C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39181958
chr9:39182027	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.539-3667A>G c.539-3667A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39182027
chr9:39182157	T T	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-3797A>C c.539-3797A>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39182157
chr9:39182455	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-4095T>C c.539-4095T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39182455
chr9:39182477	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-4117G>A c.539-4117G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39182477
chr9:39182492	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-4132G>A c.539-4132G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39182492
chr9:39183456	G G	T T	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.539-5096C>A c.539-5096C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39183456
chr9:39183686	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-5326G>A c.539-5326G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39183686
chr9:39184068	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.539-5708T>C c.539-5708T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39184068
chr9:39184217	C C	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-5857G>T c.539-5857G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39184217
chr9:39184386	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-6026T>C c.539-6026T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39184386
chr9:39184893	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-6533T>C c.539-6533T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39184893
chr9:39184894	G G	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-6534C>A c.539-6534C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39184894
chr9:39184946	G G	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-6586C>A c.539-6586C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39184946
chr9:39184952	T T	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-6592A>T c.539-6592A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39184952
chr9:39185024	T T	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-6664A>C c.539-6664A>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39185024
chr9:39185033	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-6673C>T c.539-6673C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39185033
chr9:39185070	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.539-6710G>A c.539-6710G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39185070
chr9:39185139	G G	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.539-6779C>A c.539-6779C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39185139
chr9:39186437	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.538+6691G>A c.538+6691G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39186437
chr9:39186507	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.538+6621T>C c.538+6621T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39186507
chr9:39186596	T T	G G	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.538+6532A>C c.538+6532A>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39186596
chr9:39186634	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.538+6494A>G c.538+6494A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39186634
chr9:39188600	G G	A A	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.538+4528C>T c.538+4528C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39188600
chr9:39188650	C C	T T	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.538+4478G>A c.538+4478G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39188650
chr9:39188950	G G	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.538+4178C>G c.538+4178C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39188950
chr9:39189598	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.538+3530G>A c.538+3530G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39189598
chr9:39189703	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.538+3425C>T c.538+3425C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39189703
chr9:39189774	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.538+3354C>T c.538+3354C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39189774
chr9:39189779	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.538+3349G>A c.538+3349G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39189779
chr9:39190120	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.538+3008C>T c.538+3008C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39190120
chr9:39190216	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.538+2912G>A c.538+2912G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39190216
chr9:39190274	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.538+2854C>T c.538+2854C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39190274
chr9:39190336	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.538+2792G>A c.538+2792G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39190336
chr9:39190354	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.538+2774G>A c.538+2774G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39190354
chr9:39190423	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.538+2705G>A c.538+2705G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39190423
chr9:39191089	G G	A A	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.538+2039C>T c.538+2039C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39191089
chr9:39191438	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.538+1690C>T c.538+1690C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39191438
chr9:39191766	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.538+1362A>G c.538+1362A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39191766
chr9:39192791	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.538+337T>C c.538+337T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	4/23	chr9	39192791
chr9:39194435	C C	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-1160G>C c.391-1160G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39194435
chr9:39194542	CAA CAA	C C	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-1269_391-1268d others(4): Show c.391-1269_391-1268delTT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39194542
chr9:39194781	C C	CTTTTTTT others(3): Show CTTTTTTTTTT	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-1516_391-1507d others(12): Show c.391-1516_391-1507dupAAAAAAAAAA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39194781
chr9:39194781	CTTTTTTT others(5): Show CTTTTTTTTTTTT	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-1518_391-1507d others(14): Show c.391-1518_391-1507delAAAAAAAAAAAA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39194781
chr9:39195534	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-2259A>G c.391-2259A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39195534
chr9:39196054	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-2779A>G c.391-2779A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39196054
chr9:39196169	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-2894G>A c.391-2894G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39196169
chr9:39196380	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-3105A>G c.391-3105A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39196380
chr9:39197606	A A	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.391-4331T>A c.391-4331T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39197606
chr9:39197671	C C	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-4396G>C c.391-4396G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39197671
chr9:39198036	G G	A A	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-4761C>T c.391-4761C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39198036
chr9:39198083	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-4808G>A c.391-4808G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39198083
chr9:39198218	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-4943A>G c.391-4943A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39198218
chr9:39198727	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-5452T>C c.391-5452T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39198727
chr9:39200260	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-6985G>A c.391-6985G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39200260
chr9:39200352	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-7077G>A c.391-7077G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39200352
chr9:39200511	G G	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-7236C>T c.391-7236C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39200511
chr9:39201454	C C	G G	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-8179G>C c.391-8179G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39201454
chr9:39201719	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-8444T>C c.391-8444T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39201719
chr9:39201869	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-8594G>A c.391-8594G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39201869
chr9:39202109	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.391-8834G>A c.391-8834G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39202109
chr9:39202308	T T	A A	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-9033A>T c.391-9033A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39202308
chr9:39202339	C C	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-9064G>C c.391-9064G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39202339
chr9:39202355	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-9080T>C c.391-9080T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39202355
chr9:39202588	A A	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.391-9313T>G c.391-9313T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39202588
chr9:39202677	C C	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-9402G>C c.391-9402G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39202677
chr9:39202966	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-9691C>T c.391-9691C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39202966
chr9:39202972	G G	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.391-9697C>A c.391-9697C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39202972
chr9:39203011	G G	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-9736C>G c.391-9736C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39203011
chr9:39203164	A A	G G	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-9889T>C c.391-9889T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39203164
chr9:39203773	G G	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-10498C>A c.391-10498C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39203773
chr9:39203961	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-10686G>A c.391-10686G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39203961
chr9:39204043	G G	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-10768C>A c.391-10768C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39204043
chr9:39204852	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-11577C>T c.391-11577C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39204852
chr9:39204967	AATCATCA others(8): Show AATCATCATCATCATC	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-11707_391-1169 others(19): Show c.391-11707_391-11693delGATGATGATGATGAT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39204967
chr9:39205083	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-11808A>G c.391-11808A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39205083
chr9:39205169	CT CT	C C	2	a0001c0001t0003g0002 a0004c0002t0001g0003 a0001c0001t0003g0002 a0004c0002t0001g0003	2	HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-11895delA c.391-11895delA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39205169
chr9:39205428	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-12153C>T c.391-12153C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39205428
chr9:39205462	A A	G G	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-12187T>C c.391-12187T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39205462
chr9:39205755	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-12480T>C c.391-12480T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39205755
chr9:39205853	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-12578A>G c.391-12578A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39205853
chr9:39205881	A A	G G	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-12606T>C c.391-12606T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39205881
chr9:39206544	G G	A A	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-13269C>T c.391-13269C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39206544
chr9:39206588	CAG CAG	C C	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-13315_391-1331 others(6): Show c.391-13315_391-13314delCT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39206588
chr9:39207596	A A	T T	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-14321T>A c.391-14321T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39207596
chr9:39208335	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-15060A>G c.391-15060A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39208335
chr9:39208373	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-15098T>C c.391-15098T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39208373
chr9:39208543	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-15268G>A c.391-15268G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39208543
chr9:39208744	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-15469A>G c.391-15469A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39208744
chr9:39208822	C C	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-15547G>C c.391-15547G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39208822
chr9:39209181	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-15906G>A c.391-15906G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39209181
chr9:39209215	T T	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.391-15940A>C c.391-15940A>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39209215
chr9:39209337	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-16062G>A c.391-16062G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39209337
chr9:39209442	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-16167T>C c.391-16167T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39209442
chr9:39209599	TTCCC TTCCC	T T	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-16328_391-1632 others(8): Show c.391-16328_391-16325delGGGA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39209599
chr9:39209690	CCCTTCCT others(1): Show CCCTTCCTT	C C	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-16423_391-1641 others(12): Show c.391-16423_391-16416delAAGGAAGG	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39209690
chr9:39209702	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-16427A>G c.391-16427A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39209702
chr9:39209747	G G	A A	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-16472C>T c.391-16472C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39209747
chr9:39209791	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-16516T>C c.391-16516T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39209791
chr9:39210129	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-16854C>T c.391-16854C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39210129
chr9:39210356	G G	A A	2	a0001c0001t0003g0002 a0004c0002t0001g0003 a0001c0001t0003g0002 a0004c0002t0001g0003	2	HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-17081C>T c.391-17081C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39210356
chr9:39210579	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-17304A>G c.391-17304A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39210579
chr9:39211081	T T	C C	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-17806A>G c.391-17806A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39211081
chr9:39211103	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-17828A>G c.391-17828A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39211103
chr9:39211398	T T	A A	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-18123A>T c.391-18123A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39211398
chr9:39211717	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-18442C>T c.391-18442C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39211717
chr9:39211863	T T	C C	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-18588A>G c.391-18588A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39211863
chr9:39211990	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.391-18715G>A c.391-18715G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39211990
chr9:39212017	CACT CACT	C C	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-18745_391-1874 others(7): Show c.391-18745_391-18743delAGT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39212017
chr9:39212104	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-18829C>T c.391-18829C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39212104
chr9:39212165	A A	C C	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-18890T>G c.391-18890T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39212165
chr9:39212453	G G	A A	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-19178C>T c.391-19178C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39212453
chr9:39212713	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-19438G>A c.391-19438G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39212713
chr9:39212879	A A	G G	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-19604T>C c.391-19604T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39212879
chr9:39212909	A A	G G	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-19634T>C c.391-19634T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39212909
chr9:39212949	G G	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-19674C>G c.391-19674C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39212949
chr9:39213186	GAGAGGAG others(8): Show GAGAGGAGAGAAGAGA	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-19926_391-1991 others(19): Show c.391-19926_391-19912delTCTCTTCTCTCCTCT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39213186
chr9:39213191	GAGAGAAG others(3): Show GAGAGAAGAGA	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-19926_391-1991 others(14): Show c.391-19926_391-19917delTCTCTTCTCT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39213191
chr9:39213191	GAGAGAAG others(13): Show GAGAGAAGAGAAGAGAAGAGA	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.391-19936_391-1991 others(24): Show c.391-19936_391-19917delTCTCTTCTCTTCTCTTCTCT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39213191
chr9:39213293	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-20018A>G c.391-20018A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39213293
chr9:39213447	C C	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-20172G>C c.391-20172G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39213447
chr9:39213689	G G	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-20414C>G c.391-20414C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39213689
chr9:39213967	A A	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-20692T>G c.391-20692T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39213967
chr9:39213998	T T	C C	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-20723A>G c.391-20723A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39213998
chr9:39214544	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-21269A>G c.391-21269A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39214544
chr9:39214695	G G	A A	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-21420C>T c.391-21420C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39214695
chr9:39214891	T T	C C	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-21616A>G c.391-21616A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39214891
chr9:39214979	G G	A A	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-21704C>T c.391-21704C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39214979
chr9:39215213	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.391-21938G>A c.391-21938G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39215213
chr9:39215220	T T	C C	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-21945A>G c.391-21945A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39215220
chr9:39215581	A A	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.391-22306T>G c.391-22306T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39215581
chr9:39215924	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.391-22649A>G c.391-22649A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39215924
chr9:39216582	G G	A A	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+22411C>T c.390+22411C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39216582
chr9:39216822	C C	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.390+22171G>C c.390+22171G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39216822
chr9:39217270	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+21723G>A c.390+21723G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39217270
chr9:39217358	GTATATAT others(17): Show GTATATATATATATATATATATATA	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+21611_390+2163 others(28): Show c.390+21611_390+21634delTATATATATATATATATATATATA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39217358
chr9:39217358	GTATATAT others(19): Show GTATATATATATATATATATATATATA	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+21609_390+2163 others(30): Show c.390+21609_390+21634delTATATATATATATATATATATATATA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39217358
chr9:39217537	G G	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+21456C>A c.390+21456C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39217537
chr9:39217673	T T	C C	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+21320A>G c.390+21320A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39217673
chr9:39217727	A A	T T	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+21266T>A c.390+21266T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39217727
chr9:39217869	A A	T T	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+21124T>A c.390+21124T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39217869
chr9:39218078	A A	G G	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+20915T>C c.390+20915T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39218078
chr9:39218132	T T	C C	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+20861A>G c.390+20861A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39218132
chr9:39218151	A A	G G	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+20842T>C c.390+20842T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39218151
chr9:39218471	G G	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+20522C>T c.390+20522C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39218471
chr9:39218577	A A	G G	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+20416T>C c.390+20416T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39218577
chr9:39218599	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.390+20394A>G c.390+20394A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39218599
chr9:39218672	A A	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+20321T>G c.390+20321T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39218672
chr9:39218810	T T	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+20183A>T c.390+20183A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39218810
chr9:39218854	A A	G G	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+20139T>C c.390+20139T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39218854
chr9:39218933	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+20060G>A c.390+20060G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39218933
chr9:39219011	C C	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+19982G>C c.390+19982G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39219011
chr9:39219284	C C	CT CT	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+19708dupA c.390+19708dupA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39219284
chr9:39219284	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+19709G>A c.390+19709G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39219284
chr9:39219306	C C	G G	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+19687G>C c.390+19687G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39219306
chr9:39219365	A A	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+19628T>G c.390+19628T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39219365
chr9:39219408	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+19585G>A c.390+19585G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39219408
chr9:39219433	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+19560C>T c.390+19560C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39219433
chr9:39220400	A A	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.390+18593T>G c.390+18593T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39220400
chr9:39220438	T T	C C	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+18555A>G c.390+18555A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39220438
chr9:39220898	G G	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+18095C>T c.390+18095C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39220898
chr9:39221109	C C	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+17884G>T c.390+17884G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39221109
chr9:39221144	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+17849G>A c.390+17849G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39221144
chr9:39221190	G G	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+17803C>G c.390+17803C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39221190
chr9:39221602	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.390+17391A>G c.390+17391A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39221602
chr9:39221639	A A	G G	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+17354T>C c.390+17354T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39221639
chr9:39222018	G G	A A	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+16975C>T c.390+16975C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39222018
chr9:39222319	A A	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+16674T>C c.390+16674T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39222319
chr9:39222341	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+16652A>G c.390+16652A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39222341
chr9:39222361	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+16632G>A c.390+16632G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39222361
chr9:39222547	G G	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+16446C>G c.390+16446C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39222547
chr9:39222697	A A	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.390+16296T>G c.390+16296T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39222697
chr9:39222726	G G	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+16267C>G c.390+16267C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39222726
chr9:39223156	T T	G G	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+15837A>C c.390+15837A>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39223156
chr9:39224110	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+14883A>G c.390+14883A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39224110
chr9:39224136	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+14857A>G c.390+14857A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39224136
chr9:39224140	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+14853A>G c.390+14853A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39224140
chr9:39224250	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+14743G>A c.390+14743G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39224250
chr9:39225243	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+13750A>G c.390+13750A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39225243
chr9:39225829	T T	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.390+13164A>T c.390+13164A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39225829
chr9:39226934	A A	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+12059T>C c.390+12059T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39226934
chr9:39226936	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+12057C>T c.390+12057C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39226936
chr9:39226938	G G	A A	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+12055C>T c.390+12055C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39226938
chr9:39226940	G G	A A	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+12053C>T c.390+12053C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39226940
chr9:39226951	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+12042A>G c.390+12042A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39226951
chr9:39226951	T T	TATATATA others(19): Show TATATATATATATATATATATATATAC	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+12041_390+1204 others(30): Show c.390+12041_390+12042insGTATATATATATATATATATATATAT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39226951
chr9:39227933	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+11060T>C c.390+11060T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39227933
chr9:39228043	T T	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+10950A>C c.390+10950A>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39228043
chr9:39228544	C C	CTTTTTTT others(3): Show CTTTTTTTTTT	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+10439_390+1044 others(14): Show c.390+10439_390+10448dupAAAAAAAAAA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39228544
chr9:39229118	G G	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+9875C>G c.390+9875C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39229118
chr9:39229446	TAC TAC	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+9545_390+9546d others(4): Show c.390+9545_390+9546delGT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39229446
chr9:39229786	C C	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+9207G>C c.390+9207G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39229786
chr9:39229793	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+9200T>C c.390+9200T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39229793
chr9:39230172	A A	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+8821T>G c.390+8821T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39230172
chr9:39230832	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+8161G>A c.390+8161G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39230832
chr9:39231103	C C	T T	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+7890G>A c.390+7890G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39231103
chr9:39231574	C C	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+7419G>T c.390+7419G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39231574
chr9:39231827	G G	GTTC GTTC	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+7163_390+7165d others(5): Show c.390+7163_390+7165dupGAA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39231827
chr9:39231948	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+7045T>C c.390+7045T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39231948
chr9:39231954	G G	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+7039C>T c.390+7039C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39231954
chr9:39231954	G G	GTGTGTGT others(13): Show GTGTGTGTATATATATATATA	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+7038_390+7039i others(22): Show c.390+7038_390+7039insTATATATATATATACACACA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39231954
chr9:39231973	A A	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+7020T>A c.390+7020T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39231973
chr9:39231977	G G	A A	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+7016C>T c.390+7016C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39231977
chr9:39232866	G G	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+6127C>T c.390+6127C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39232866
chr9:39232896	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+6097C>T c.390+6097C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39232896
chr9:39233006	T T	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+5987A>C c.390+5987A>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39233006
chr9:39233028	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+5965C>T c.390+5965C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39233028
chr9:39233667	A A	C C	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+5326T>G c.390+5326T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39233667
chr9:39233751	G G	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+5242C>T c.390+5242C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39233751
chr9:39233895	G G	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+5098C>G c.390+5098C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39233895
chr9:39234057	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+4936C>T c.390+4936C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39234057
chr9:39234118	C C	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+4875G>T c.390+4875G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39234118
chr9:39234139	T T	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+4854A>T c.390+4854A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39234139
chr9:39234156	C C	T T	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+4837G>A c.390+4837G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39234156
chr9:39234347	G G	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+4646C>A c.390+4646C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39234347
chr9:39234408	C C	T T	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+4585G>A c.390+4585G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39234408
chr9:39235069	A A	T T	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+3924T>A c.390+3924T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39235069
chr9:39236251	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+2742G>A c.390+2742G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39236251
chr9:39236431	T T	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+2562A>C c.390+2562A>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39236431
chr9:39236518	T T	C C	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+2475A>G c.390+2475A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39236518
chr9:39237077	A A	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+1916T>C c.390+1916T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39237077
chr9:39237315	C C	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+1678G>C c.390+1678G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39237315
chr9:39237935	C C	CTTATTA CTTATTA	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+1052_390+1057d others(8): Show c.390+1052_390+1057dupTAATAA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39237935
chr9:39238350	CAAAA CAAAA	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+639_390+642del others(4): Show c.390+639_390+642delTTTT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39238350
chr9:39238530	AATAAAAA others(6): Show AATAAAAAAAAAAC	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+450_390+462del others(13): Show c.390+450_390+462delGTTTTTTTTTTAT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39238530
chr9:39238532	T T	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+461A>T c.390+461A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39238532
chr9:39238539	A A	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+454T>G c.390+454T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39238539
chr9:39238546	A A	AAAAC AAAAC	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.390+443_390+446dup others(4): Show c.390+443_390+446dupGTTT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39238546
chr9:39238550	C C	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+443G>T c.390+443G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39238550
chr9:39238635	A A	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+358T>C c.390+358T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39238635
chr9:39238788	A A	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+205T>G c.390+205T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39238788
chr9:39238920	A A	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.390+73T>G c.390+73T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	3/23	chr9	39238920
chr9:39239375	C C	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-189G>T c.197-189G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39239375
chr9:39240105	A A	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-919T>C c.197-919T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39240105
chr9:39240580	A A	AT AT	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-1395dupA c.197-1395dupA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39240580
chr9:39240599	A A	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-1413T>C c.197-1413T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39240599
chr9:39240633	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-1447C>T c.197-1447C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39240633
chr9:39241318	A A	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-2132T>C c.197-2132T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39241318
chr9:39241485	G G	T T	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-2299C>A c.197-2299C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39241485
chr9:39241676	G G	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-2490C>A c.197-2490C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39241676
chr9:39241681	TG TG	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-2496delC c.197-2496delC	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39241681
chr9:39241682	G G	T T	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-2496C>A c.197-2496C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39241682
chr9:39241776	CAA CAA	C C	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-2592_197-2591d others(4): Show c.197-2592_197-2591delTT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39241776
chr9:39242155	C C	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-2969G>C c.197-2969G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39242155
chr9:39242271	G G	A A	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-3085C>T c.197-3085C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39242271
chr9:39242797	C C	CT CT	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-3612dupA c.197-3612dupA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39242797
chr9:39243210	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-4024A>G c.197-4024A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39243210
chr9:39243376	G G	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-4190C>T c.197-4190C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39243376
chr9:39244191	A A	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-5005T>C c.197-5005T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39244191
chr9:39244405	A A	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-5219T>G c.197-5219T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39244405
chr9:39244543	A A	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-5357T>A c.197-5357T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39244543
chr9:39244772	T T	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-5586A>T c.197-5586A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39244772
chr9:39244964	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-5778A>G c.197-5778A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39244964
chr9:39245175	A A	T T	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-5989T>A c.197-5989T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39245175
chr9:39245866	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-6680A>G c.197-6680A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39245866
chr9:39246192	C C	T T	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-7006G>A c.197-7006G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39246192
chr9:39246210	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-7024A>G c.197-7024A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39246210
chr9:39246576	C C	T T	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-7390G>A c.197-7390G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39246576
chr9:39247004	A A	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-7818T>C c.197-7818T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39247004
chr9:39247143	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-7957G>A c.197-7957G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39247143
chr9:39247571	C C	CTAT CTAT	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-8386_197-8385i others(5): Show c.197-8386_197-8385insATA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39247571
chr9:39247618	T T	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-8432A>T c.197-8432A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39247618
chr9:39247889	C C	G G	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-8703G>C c.197-8703G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39247889
chr9:39248368	C C	T T	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-9182G>A c.197-9182G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39248368
chr9:39248534	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-9348A>G c.197-9348A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39248534
chr9:39248556	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-9370G>A c.197-9370G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39248556
chr9:39248579	C C	CT CT	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-9394dupA c.197-9394dupA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39248579
chr9:39248838	C C	T T	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-9652G>A c.197-9652G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39248838
chr9:39248898	G G	T T	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-9712C>A c.197-9712C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39248898
chr9:39248920	G G	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-9734C>T c.197-9734C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39248920
chr9:39249060	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-9874G>A c.197-9874G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39249060
chr9:39249285	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-10099A>G c.197-10099A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39249285
chr9:39249409	A A	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-10223T>G c.197-10223T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39249409
chr9:39249575	G G	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-10389C>T c.197-10389C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39249575
chr9:39249579	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-10393A>G c.197-10393A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39249579
chr9:39249619	A A	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-10433T>G c.197-10433T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39249619
chr9:39249692	C C	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-10506G>T c.197-10506G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39249692
chr9:39249774	C C	T T	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-10588G>A c.197-10588G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39249774
chr9:39249926	A A	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-10740T>C c.197-10740T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39249926
chr9:39250009	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-10823A>G c.197-10823A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39250009
chr9:39250163	G G	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-10977C>T c.197-10977C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39250163
chr9:39250228	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-11042A>G c.197-11042A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39250228
chr9:39250470	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-11284C>T c.197-11284C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39250470
chr9:39250775	A A	G G	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-11589T>C c.197-11589T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39250775
chr9:39250829	A A	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-11643T>C c.197-11643T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39250829
chr9:39250972	T T	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-11786A>G c.197-11786A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39250972
chr9:39251039	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-11853C>T c.197-11853C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39251039
chr9:39251137	C C	T T	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-11951G>A c.197-11951G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39251137
chr9:39251183	G G	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-11997C>T c.197-11997C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39251183
chr9:39251231	G G	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-12045C>G c.197-12045C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39251231
chr9:39251282	A A	G G	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-12096T>C c.197-12096T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39251282
chr9:39251528	C C	T T	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-12342G>A c.197-12342G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39251528
chr9:39251714	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-12528A>G c.197-12528A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39251714
chr9:39251975	G G	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-12789C>T c.197-12789C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39251975
chr9:39252379	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.197-13193A>G c.197-13193A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39252379
chr9:39252491	G G	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-13305C>T c.197-13305C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39252491
chr9:39252569	T T	A A	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-13383A>T c.197-13383A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39252569
chr9:39252935	CAT CAT	C C	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-13751_197-1375 others(6): Show c.197-13751_197-13750delAT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39252935
chr9:39253014	TACACACA others(1): Show TACACACAC	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.197-13836_197-1382 others(12): Show c.197-13836_197-13829delGTGTGTGT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39253014
chr9:39253145	AAT AAT	A A	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+13749_196+1375 others(6): Show c.196+13749_196+13750delAT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39253145
chr9:39253163	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+13733A>G c.196+13733A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39253163
chr9:39253165	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+13731A>G c.196+13731A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39253165
chr9:39253167	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+13729A>G c.196+13729A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39253167
chr9:39253255	C C	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+13641G>C c.196+13641G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39253255
chr9:39253548	G G	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+13348C>G c.196+13348C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39253548
chr9:39253789	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+13107A>G c.196+13107A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39253789
chr9:39254024	T T	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+12872A>T c.196+12872A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39254024
chr9:39254361	G G	GCACAGTC others(24): Show GCACAGTCAACAATCATCATCATCATCATCAT	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+12534_196+1253 others(35): Show c.196+12534_196+12535insATGATGATGATGATGATGATTGTTGA CTGTG	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39254361
chr9:39254701	C C	T T	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+12195G>A c.196+12195G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39254701
chr9:39255074	T T	G G	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+11822A>C c.196+11822A>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39255074
chr9:39255110	C C	T T	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+11786G>A c.196+11786G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39255110
chr9:39255223	C C	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.196+11673G>T c.196+11673G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39255223
chr9:39255261	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.196+11635G>A c.196+11635G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39255261
chr9:39255661	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.196+11235C>T c.196+11235C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39255661
chr9:39255839	G G	A A	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+11057C>T c.196+11057C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39255839
chr9:39256003	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.196+10893G>A c.196+10893G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39256003
chr9:39256185	G G	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+10711C>T c.196+10711C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39256185
chr9:39256403	A A	G G	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+10493T>C c.196+10493T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39256403
chr9:39256479	G G	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.196+10417C>T c.196+10417C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39256479
chr9:39256505	A A	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.196+10391T>C c.196+10391T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39256505
chr9:39256880	A A	G G	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+10016T>C c.196+10016T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39256880
chr9:39257113	G G	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.196+9783C>T c.196+9783C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39257113
chr9:39257286	C C	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.196+9610G>T c.196+9610G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39257286
chr9:39257306	C C	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.196+9590G>C c.196+9590G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39257306
chr9:39257411	T T	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.196+9485A>T c.196+9485A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39257411
chr9:39257555	A A	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+9341T>C c.196+9341T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39257555
chr9:39258151	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.196+8745G>A c.196+8745G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39258151
chr9:39258295	G G	A A	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+8601C>T c.196+8601C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39258295
chr9:39258460	A A	G G	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+8436T>C c.196+8436T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39258460
chr9:39258673	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.196+8223G>A c.196+8223G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39258673
chr9:39259184	G G	C C	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+7712C>G c.196+7712C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39259184
chr9:39259195	T T	C C	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+7701A>G c.196+7701A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39259195
chr9:39259374	A A	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.196+7522T>A c.196+7522T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39259374
chr9:39259698	A A	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.196+7198T>A c.196+7198T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39259698
chr9:39260267	T T	C C	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+6629A>G c.196+6629A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39260267
chr9:39260271	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.196+6625A>G c.196+6625A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39260271
chr9:39260501	A A	G G	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+6395T>C c.196+6395T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39260501
chr9:39260614	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+6282A>G c.196+6282A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39260614
chr9:39260678	G G	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+6218C>T c.196+6218C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39260678
chr9:39260749	AAAC AAAC	A A	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+6144_196+6146d others(5): Show c.196+6144_196+6146delGTT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39260749
chr9:39261143	G G	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.196+5753C>A c.196+5753C>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39261143
chr9:39261340	G G	A A	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+5556C>T c.196+5556C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39261340
chr9:39261353	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.196+5543G>A c.196+5543G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39261353
chr9:39262028	A A	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+4868T>C c.196+4868T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39262028
chr9:39263987	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.196+2909G>A c.196+2909G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39263987
chr9:39264214	G G	GATAA GATAA	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+2678_196+2681d others(6): Show c.196+2678_196+2681dupTTAT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39264214
chr9:39264537	G G	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.196+2359C>T c.196+2359C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39264537
chr9:39265572	T T	TA TA	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+1323dupT c.196+1323dupT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39265572
chr9:39266204	T T	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.196+692A>C c.196+692A>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39266204
chr9:39266530	T T	TA TA	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.196+365dupT c.196+365dupT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39266530
chr9:39266632	A A	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.196+264T>A c.196+264T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39266632
chr9:39266780	A A	T T	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.196+116T>A c.196+116T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	2/23	chr9	39266780
chr9:39267193	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.86-187A>G c.86-187A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39267193
chr9:39267725	C C	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.86-719G>A c.86-719G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39267725
chr9:39268730	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.86-1724A>G c.86-1724A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39268730
chr9:39269005	C C	T T	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.86-1999G>A c.86-1999G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39269005
chr9:39269261	C C	T T	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.86-2255G>A c.86-2255G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39269261
chr9:39269582	TA TA	T T	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.86-2577delT c.86-2577delT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39269582
chr9:39270364	G G	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.86-3358C>T c.86-3358C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39270364
chr9:39270717	C C	T T	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.86-3711G>A c.86-3711G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39270717
chr9:39270862	C C	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.86-3856G>C c.86-3856G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39270862
chr9:39271692	G G	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.86-4686C>T c.86-4686C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39271692
chr9:39271758	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.86-4752A>G c.86-4752A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39271758
chr9:39272051	C C	T T	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.86-5045G>A c.86-5045G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39272051
chr9:39272361	A A	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.86-5355T>C c.86-5355T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39272361
chr9:39272536	G G	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.86-5530C>T c.86-5530C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39272536
chr9:39272668	G G	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.86-5662C>T c.86-5662C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39272668
chr9:39272884	C C	T T	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.86-5878G>A c.86-5878G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39272884
chr9:39272966	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.86-5960G>A c.86-5960G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39272966
chr9:39273056	C C	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.86-6050G>T c.86-6050G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39273056
chr9:39273079	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.86-6073A>G c.86-6073A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39273079
chr9:39274275	C C	T T	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.86-7269G>A c.86-7269G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39274275
chr9:39274313	T T	C C	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.86-7307A>G c.86-7307A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39274313
chr9:39275003	A A	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.86-7997T>C c.86-7997T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39275003
chr9:39275005	C C	T T	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.86-7999G>A c.86-7999G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39275005
chr9:39275407	A A	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.86-8401T>G c.86-8401T>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39275407
chr9:39275817	G G	A A	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.86-8811C>T c.86-8811C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39275817
chr9:39276013	C C	T T	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.86-9007G>A c.86-9007G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39276013
chr9:39276025	T T	C C	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.86-9019A>G c.86-9019A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39276025
chr9:39276458	C C	T T	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.86-9452G>A c.86-9452G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39276458
chr9:39276629	G G	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.86-9623C>T c.86-9623C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39276629
chr9:39276681	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.86-9675A>G c.86-9675A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39276681
chr9:39277173	G G	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.86-10167C>G c.86-10167C>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39277173
chr9:39277849	C C	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+10131G>C c.85+10131G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39277849
chr9:39277887	T T	C C	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+10093A>G c.85+10093A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39277887
chr9:39277916	C C	T T	2	a0002c0003t0004g0001 a0004c0002t0001g0003 a0002c0003t0004g0001 a0004c0002t0001g0003	2	HG02109.hp1 homoSapiens_chm13v2.hp1 HG02109.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+10064G>A c.85+10064G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39277916
chr9:39278481	C C	T T	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+9499G>A c.85+9499G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39278481
chr9:39278690	T T	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+9290A>T c.85+9290A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39278690
chr9:39278973	T T	C C	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.85+9007A>G c.85+9007A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39278973
chr9:39279509	A A	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+8471T>C c.85+8471T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39279509
chr9:39279525	A A	G G	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+8455T>C c.85+8455T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39279525
chr9:39279910	G G	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+8070C>T c.85+8070C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39279910
chr9:39280109	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+7871A>G c.85+7871A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39280109
chr9:39280344	A A	G G	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.85+7636T>C c.85+7636T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39280344
chr9:39280441	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.85+7539G>A c.85+7539G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39280441
chr9:39280721	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+7259A>G c.85+7259A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39280721
chr9:39281080	G G	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+6900C>T c.85+6900C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39281080
chr9:39281115	G G	A A	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+6865C>T c.85+6865C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39281115
chr9:39281402	T T	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+6578A>T c.85+6578A>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39281402
chr9:39283832	GT GT	G G	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+4147delA c.85+4147delA	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39283832
chr9:39284101	C C	T T	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.85+3879G>A c.85+3879G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39284101
chr9:39285048	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+2932A>G c.85+2932A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39285048
chr9:39285517	A A	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+2463T>C c.85+2463T>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39285517
chr9:39285591	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.85+2389C>T c.85+2389C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39285591
chr9:39285742	C C	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+2238G>C c.85+2238G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39285742
chr9:39285869	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+2111A>G c.85+2111A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39285869
chr9:39285897	T T	C C	1	a0002c0003t0004g0001 a0002c0003t0004g0001	1	HG02109.hp1 HG02109.hp1	intron_variant	MODIFIER	c.85+2083A>G c.85+2083A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39285897
chr9:39285898	C C	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+2082G>C c.85+2082G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39285898
chr9:39285939	A A	T T	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+2041T>A c.85+2041T>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39285939
chr9:39286146	C C	T T	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+1834G>A c.85+1834G>A	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39286146
chr9:39286535	G G	A A	3	a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003 a0001c0001t0003g0002 a0002c0003t0004g0001 a0004c0002t0001g0003	3	HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1 HG02109.hp1 HG02109.hp2 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+1445C>T c.85+1445C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39286535
chr9:39286551	G G	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+1429C>T c.85+1429C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39286551
chr9:39286568	G G	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+1412C>T c.85+1412C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39286568
chr9:39287101	C C	A A	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+879G>T c.85+879G>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39287101
chr9:39287145	T T	C C	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+835A>G c.85+835A>G	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39287145
chr9:39287247	G G	A A	1	a0001c0001t0003g0002 a0001c0001t0003g0002	1	HG02109.hp2 HG02109.hp2	intron_variant	MODIFIER	c.85+733C>T c.85+733C>T	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39287247
chr9:39287676	C C	G G	1	a0004c0002t0001g0003 a0004c0002t0001g0003	1	homoSapiens_chm13v2.hp1 homoSapiens_chm13v2.hp1	intron_variant	MODIFIER	c.85+304G>C c.85+304G>C	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39287676
chr9:39287914	TA TA	T T	2	a0001c0001t0003g0002 a0002c0003t0004g0001 a0001c0001t0003g0002 a0002c0003t0004g0001	2	HG02109.hp1 HG02109.hp2 HG02109.hp1 HG02109.hp2	intron_variant	MODIFIER	c.85+65delT c.85+65delT	CNTNAP3	ENSG00000106714.18	transcript	ENST00000297668.11	protein_coding	1/23	chr9	39287914

Search

JoGo Online Haplotype Explorer CNTNAP3_chr9_39059710_39293167

JoGo Local Haplotype Explorer (on iGV) CNTNAP3_chr9_39059710_39293167

Translation Multiple Alignment View

🧬 Gene Summary (with MANE)

AAmino acid(protein) Level Haplotype Info (Total: 4)

CCoding Level Haplotype Info (Total: 4)

TTranscript Level Haplotype Info (Total: 4)

GGenebody Level Haplotype Info (Total: 4)

A C AC Level (Amino Acid + Coding) Haplotype Info (Total: 4)

A C T ACT Level (Amino Acid + Coding + Transcript) Haplotype Info (Total: 4)

A C T G ACTG Level (Amino Acid + Coding + Transcript + Genebody) Haplotype Info (Total: 4)

Haplotype Details by Sample (Haploid Level) (Total: 4)

AAmino acid(protein) Level Haplotype Related Variants (Effect to Protein Coding Variants) (Total: 6)

CCoding Level Variants (On coding region but no effect to protein coding variants: Synonymous Mutations) (Total: 5)

TTranscript Level Haplotype Variants (Exon) (Total: 37)

GGenebody Level Haplotype Variants (Intron) (Total: 837)

External Link

Annotation (Repeats)

Annotation (SNP Array)