Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005469
Fusion event
HBV-HS6ST3 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1794
Orient
+
Integrated sequence
CTTGAGGCATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAAT| |TGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTT
Host Sequence
Chromosome
chr13
Cytoband
q32.1
Reference genome
Start
End
96965850/96313596 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-5589-3p ; hsa-mir-6856-5p ; hsa-mir-6758-5p ; hsa-mir-574-5p ; hsa-mir-5010-3p ; hsa-mir-147a ; hsa-mir-6818-5p ; hsa-mir-592 ; hsa-mir-513a-5p ; hsa-mir-8068 ; hsa-mir-6867-5p ; hsa-mir-597-5p ; hsa-mir-486-3p ; hsa-mir-6721-5p ; hsa-mir-4445-5p ; hsa-mir-6743-5p ; hsa-mir-4688 ; hsa-mir-6767-3p ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485
Nearest miRNA
hsa-mir-1297/Upstream/3823376; hsa-mir-1267/Downstream/113633;
Nearest CpG islands
Upstream sequence
TCATTTTGTCTTAGACAATTCTCATTTACGTATCTTAGGTCATGCAGTTCTTTTCCACTTACCTTCAATGGTGTCTTCCCTCTTCTTGCCCATTTTCCTA
Downstream sequence
AATGCTGTAGATTCATCCCAAGTCTACTACAAATGTAATGTCCCCCATGATAGCCTCAGATATTCTGTTCCTCACTGATGTGTTTCATTTCTGAATTCCT
Reference
Tu, T., et al. Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles. J Virol ,2018,92(11).