Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005812
Fusion event
HBV-KCNIP4 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
1578
Orient
+
Integrated sequence
GCTCTACCGTCCCCTTCTTCATCTGCCGTTCCGGCCGACCACGGGGCGCACCTCTCTTTACGCGGTCTCCCCGTCTGTGCCTTCTCATCTGCCGGACCGT| |GTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAGGTCTTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGC
Host Sequence
Chromosome
chr4
Cytoband
p15.31
Reference genome
Start
End
20943239/20941616 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-12113/Upstream/413232; hsa-mir-12115/Downstream/523084;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/240903, chr4-CpG: 95/Downstream/1006846
Upstream sequence
taattaaatatatttcagtatttgattttattgctcttactgcctttttagttgtctccctttgtatttttgttcgtggttagtctaaaggtcataatat
Downstream sequence
ATGCTACTGCTAATTAGACATCCAATGAAATGCCATACAGAAAGGTTAACTATTTTAAAAAATGTTATGTAATCTTCTATTTCAAATGTCATTGTTATTA
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).