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VISDB
Viral Integration Site DataBase
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TVIS10020475
Basic Information
VIS ID
TVIS10020475
Fusion event
HBV-chr5 integration
Validated
No
Detection method
VirusScan
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2016
PubMed ID
27339696
Virus Sequence
Virus name
HBV
Reference genome
NC_003977.1
Start
1170
End
2266
Orient
+
Integrated sequence
CTCTGCCAAGTGTTTGCTGACGCAACCCCCACGGGTTGGGGCTTGGCCATAGGCCATCGGCGCATGCGTGGAACCTTTGTGGCTCCTCTGCCGATCCATACTGCGGAACTCCTAGCAGCTTGTTTTGCTCGCAGCCGGTCTGGAGCGAAACTTATCGGAACCGACAACTCAGTTGTCCTCTCTCGGAAATACACCTCCTTTCCATGGCTGCTAGGCTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTC
Host Sequence
Chromosome
chr5
Cytoband
p14.3
Reference genome
GRCh37/hg19
Start
22932147/22932038 (Hg38)
End
22933195/22933086 (Hg38)
Orient
+
Fragile sites / regions
FRA5E
Nearest miRNA
hsa-mir-10397/Upstream/5776046; hsa-mir-103a-1/Downstream/9003016;
Nearest TSS
ENST00000502646/Upstream/78416;
ENST00000507674/Downstream/79962;
Nearest CpG islands
None/Target,
chr5-CpG: 87/Upstream/1472295
,
chr5-CpG: 68/Downstream/2257308
Upstream sequence
GAATTATCTTGAACTCTGAACATTTCTTTTGGAATTTTTAAAACATGTAAATTCACGTAATATCCCAAAATTCTGGTTCCTACATCTGAAAAATAAAGTT
Downstream sequence
aattgcccctccccttccactggctcctaattacctctacaagactctcaacttaacccactctctgttaagccagtccaatcctatcctggcaaacaac
Target sequence
tcctaatttatgaactaattcgtagatttgggcttccccaaagcttacaaagtgacaatggtctggattttaaagccacgataactcagggaatttccagggtactaaagaaacaatatcaccttcactgcgcctggaggccacaatcttaagggaaggttgagaaggcaaatgaaacactcaagagggacttgaggaaactaacacaagaaactcatctcccacggcctaacgttgaaaatctgaaattctctt
Reference
Cao, S., et al.Divergent viral presentation among human tumors and adjacent normal tissues. Sci Rep,2016, 6: 28294.
Sample Information
×
Sample name
TCGA-ED-A7XO-01A-11R-A352-07
Sample type
Tumor
Gender
Female
CpG Island Information
×
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