JoGo LogoJoint Open Genome and Omics Platform (JoGo)
  • Home
    • General
    • Gene
    • Region
    • Variant
    • Haplotype
    • Haplotype by sample
    • ClinVar
    • GWASCatalog
    • GTEx
    • HaplotypeQTL
    • Haplotype
    • Position
    • Clinvar
    • Gene
    • Variant
    • Haplotype
    • Sample
    • FAQ
    • Contact
    • Fundings
    • Developer
    • ChIP-Atlas PeakBrowser
    • ToGoVAR
    • MGeND
    • Nagasaki Lab

ALDH2_chr12_111761933_111822532 / BRCA1_chr17_43039295_43130364 etc.

  Error connecting to IGV?   TP53TG3F_chr16_33454612_33467249  TP53TG3F_chr16_33454612_33467249 (clean+top1000)

Multiple Alignments (by translate haplotype frequency)Multiple Alignments (by aa haplotype frequency) Multiple Alignments (by translate haplotype similarity)Multiple Alignments (by aa haplotype similarity)

Item Value
geneid 102724127
ensemblid ENSG00000278848.3
hgncid 51817
symbol TP53TG3F
name TP53 target 3 family member F
refseq_nuc NM_001330066.2
refseq_prot NP_001316995.1
ensembl_nuc ENST00000623042.2
ensembl_prot ENSP00000485635.1
mane_status MANE Select
chr chr16
start 33459612
end 33462249
strand +
ver v1.2
region chr16:33459612-33462249
region5000 chr16:33454612-33467249
regionname0 TP53TG3F_chr16_33459612_33462249
regionname5000 TP53TG3F_chr16_33454612_33467249

ahapid grch38/
chm13v2 		alen total AFR AMR EAS EUR SAS JPT regionname genename aa chr start end
a0001 0/0 124 36 10 2 14 0 10 10 TP53TG3F_chr16_33454612_33467249 TP53TG3F copy fasta chr16 33454612 33467249

chapid grch38/
chm13v2 		clen total AFR AMR EAS EUR SAS regionname genename cseq chr start end
c0001 0/0 375 36 10 2 14 0 10 TP53TG3F_chr16_33454612_33467249 TP53TG3F copy fasta chr16 33454612 33467249

thapid grch38
chm13v2 		tlen total AFR AMR EAS EUR SAS regionname genename tseq chr start end
t0001 0/0 1093 29 9 2 10 0 8 TP53TG3F_chr16_33454612_33467249 TP53TG3F copy fasta chr16 33454612 33467249
t0002 0/0 1094 4 0 0 4 0 0 TP53TG3F_chr16_33454612_33467249 TP53TG3F copy fasta chr16 33454612 33467249
t0003 0/0 1093 1 1 0 0 0 0 TP53TG3F_chr16_33454612_33467249 TP53TG3F copy fasta chr16 33454612 33467249
t0004 0/0 1093 1 0 0 0 0 1 TP53TG3F_chr16_33454612_33467249 TP53TG3F copy fasta chr16 33454612 33467249
t0005 0/0 1093 1 0 0 0 0 1 TP53TG3F_chr16_33454612_33467249 TP53TG3F copy fasta chr16 33454612 33467249

ghapid grch38/
chm13v2 		total AFR AMR EAS EUR SAS regionname genename chr start end
g0001 0/0 35 10 2 13 0 10 TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
g0002 0/0 1 0 0 1 0 0 TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249

achapid grch38/
chm13v2 		clen total AFR AMR EAS EUR SAS regionname genename cseq chr start end
a0001c0001 0/0 375 36 10 2 14 0 10 TP53TG3F_chr16_33454612_33467249 TP53TG3F copy fasta chr16 33454612 33467249

acthapid grch38
chm13v2 		tlen total AFR AMR EAS EUR SAS regionname genename tseq chr start end
a0001c0001t0001 0/0 1467 29 9 2 10 0 8 TP53TG3F_chr16_33454612_33467249 TP53TG3F copy fasta chr16 33454612 33467249
a0001c0001t0002 0/0 1468 4 0 0 4 0 0 TP53TG3F_chr16_33454612_33467249 TP53TG3F copy fasta chr16 33454612 33467249
a0001c0001t0003 0/0 1467 1 1 0 0 0 0 TP53TG3F_chr16_33454612_33467249 TP53TG3F copy fasta chr16 33454612 33467249
a0001c0001t0004 0/0 1467 1 0 0 0 0 1 TP53TG3F_chr16_33454612_33467249 TP53TG3F copy fasta chr16 33454612 33467249
a0001c0001t0005 0/0 1467 1 0 0 0 0 1 TP53TG3F_chr16_33454612_33467249 TP53TG3F copy fasta chr16 33454612 33467249

actghapid grch38/
chm13v2 		total AFR AMR EAS EUR SAS regionname genename chr start end
a0001c0001t0001g0001 0/0 28 9 2 9 0 8 TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
a0001c0001t0001g0002 0/0 1 0 0 1 0 0 TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
a0001c0001t0002g0001 0/0 4 0 0 4 0 0 TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
a0001c0001t0003g0001 0/0 1 1 0 0 0 0 TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
a0001c0001t0004g0001 0/0 1 0 0 0 0 1 TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
a0001c0001t0005g0001 0/0 1 0 0 0 0 1 TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249

sampleid ID
haplotypeid
 ahapid chapid thapid ghapid gpopname popname regionname genename chr start end
HG01891 hp1 a0001 c0001 t0001 g0001 AFR ACB TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
HG01891 hp2 a0001 c0001 t0003 g0001 AFR ACB TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
HG01975 hp1 a0001 c0001 t0001 g0001 AMR PEL TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
HG01975 hp2 a0001 c0001 t0001 g0001 AMR PEL TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
HG02132 hp1 a0001 c0001 t0001 g0001 EAS KHV TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
HG02132 hp2 a0001 c0001 t0001 g0001 EAS KHV TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
HG03017 hp1 a0001 c0001 t0001 g0001 SAS PJL TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
HG03017 hp2 a0001 c0001 t0005 g0001 SAS PJL TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
HG03041 hp1 a0001 c0001 t0001 g0001 AFR GWD TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
HG03041 hp2 a0001 c0001 t0001 g0001 AFR GWD TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
HG03195 hp1 a0001 c0001 t0001 g0001 AFR ESN TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
HG03195 hp2 a0001 c0001 t0001 g0001 AFR ESN TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
HG03492 hp1 a0001 c0001 t0001 g0001 SAS PJL TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
HG03492 hp2 a0001 c0001 t0001 g0001 SAS PJL TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
HG03831 hp1 a0001 c0001 t0001 g0001 SAS BEB TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
HG03831 hp2 a0001 c0001 t0001 g0001 SAS BEB TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
HG03927 hp1 a0001 c0001 t0001 g0001 SAS BEB TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
HG03927 hp2 a0001 c0001 t0004 g0001 SAS BEB TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
NA18747 hp1 a0001 c0001 t0002 g0001 EAS CHB TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
NA18747 hp2 a0001 c0001 t0002 g0001 EAS CHB TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
NA18906 hp1 a0001 c0001 t0001 g0001 AFR YRI TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
NA18906 hp2 a0001 c0001 t0001 g0001 AFR YRI TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
NA18967 hp1 a0001 c0001 t0001 g0001 EAS JPT TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
NA18967 hp2 a0001 c0001 t0001 g0002 EAS JPT TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
NA18968 hp1 a0001 c0001 t0001 g0001 EAS JPT TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
NA18968 hp2 a0001 c0001 t0001 g0001 EAS JPT TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
NA19002 hp1 a0001 c0001 t0002 g0001 EAS JPT TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
NA19002 hp2 a0001 c0001 t0001 g0001 EAS JPT TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
NA19043 hp1 a0001 c0001 t0001 g0001 AFR LWK TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
NA19043 hp2 a0001 c0001 t0001 g0001 AFR LWK TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
NA19068 hp1 a0001 c0001 t0001 g0001 EAS JPT TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
NA19068 hp2 a0001 c0001 t0001 g0001 EAS JPT TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
NA19087 hp1 a0001 c0001 t0002 g0001 EAS JPT TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
NA19087 hp2 a0001 c0001 t0001 g0001 EAS JPT TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
NA20905 hp1 a0001 c0001 t0001 g0001 SAS GIH TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249
NA20905 hp2 a0001 c0001 t0001 g0001 SAS GIH TP53TG3F_chr16_33454612_33467249 TP53TG3F chr16 33454612 33467249

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
 distance status chr pos

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
 distance status chr pos

chr:pos ref alt #
# of thapid:transcript level
 thapids #
# 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
 distance status chr pos
chr16:33459638 T
T
 C
C
 1 a0001c0001t0003
a0001c0001t0003
 1 HG01891.hp2
HG01891.hp2
 5_prime_UTR_variant MODIFIER c.-42T>C
c.-42T>C
TP53TG3F ENSG00000278848.3 transcript ENST00000623042.2 protein_coding 1/2 42 chr16 33459638
chr16:33461304 C
C
 T
T
 1 a0001c0001t0005
a0001c0001t0005
 1 HG03017.hp2
HG03017.hp2
 3_prime_UTR_variant MODIFIER c.*79C>T
c.*79C>T
TP53TG3F ENSG00000278848.3 transcript ENST00000623042.2 protein_coding 2/2 79 chr16 33461304
chr16:33461623 T
T
 TA
TA
 1 a0001c0001t0002
a0001c0001t0002
 4 NA18747.hp1
NA18747.hp2
NA19002.hp1
others(1): Show 
NA18747.hp1
NA18747.hp2
NA19002.hp1
NA19087.hp1
 3_prime_UTR_variant MODIFIER c.*411dupA
c.*411dupA
TP53TG3F ENSG00000278848.3 transcript ENST00000623042.2 protein_coding 2/2 412 INFO_REALIGN_3_PRIME chr16 33461623
chr16:33461686 A
A
 G
G
 1 a0001c0001t0004
a0001c0001t0004
 1 HG03927.hp2
HG03927.hp2
 3_prime_UTR_variant MODIFIER c.*461A>G
c.*461A>G
TP53TG3F ENSG00000278848.3 transcript ENST00000623042.2 protein_coding 2/2 461 chr16 33461686

chr:pos ref alt #
# of ghapid:genebody level
 ghapids #
# of haplotypeids
 haplotypeids annotation impact hgvs_c hgvs_p genename geneid featuretype featureid genebody_biotype rank cdna
cdna pos length
 cds
cds pos length
 aa
aa pos length
 distance status chr pos
chr16:33461017 C
C
 T
T
 1 a0001c0001t0001g0002
a0001c0001t0001g0002
 1 NA18967.hp2
NA18967.hp2
 intron_variant MODIFIER c.363-196C>T
c.363-196C>T
TP53TG3F ENSG00000278848.3 transcript ENST00000623042.2 protein_coding 1/1 chr16 33461017

  • GeneCards
  • OpenTarget
  • The Human Protein Atlas
  • Gnomad v4.1.0
  • PhewebJP (Japan)
  • UKB-TOPMed (UMich) (UK and US)
  • FinnGen r11 (Finland)
  • KoGES (Korean)
  • Mouse Phenotype
  • Zebra Phenotype
  • TogoVar

  • DNA
  • Satellite
  • All Snps 1.4.2
  • RC
  • snRNA
  • SINE
  • GC %
  • Simple_repeat
  • RNA
  • Retroposon
  • Unknown
  • Low_complexity
  • LINE
  • scRNA
  • CpG Islands
  • Phastcons (20 way)
  • srpRNA
  • Common Snps 1.4.2
  • rRNA
  • LTR
  • tRNA

  • Axiom Genome-Wide Array (Japonica Array V1)
  • Axiom Genome-Wide Array (Japonica Array V2)
  • Axiom Genome-Wide ASI Array V1 (ASI V1)
​

IGV Connection Help

IGV must be running on your computer before clicking the button.

If your browser shows the "cannot open the page" error, launch IGV and allow access via port 60151:

  1. Open IGV on your computer
  2. In IGV's menu bar: View → Preferences…
  3. Click on the "Advanced" tab
  4. Check "Enable port"
  5. Set the port number to 60151
  6. Click OK to save

For more details, please refer to Information → FAQ.