Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005312
Fusion event
HBV-KCNIP1 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
1872
Orient
-
Integrated sequence
CTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTC| |CAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATTTGGAGCTTCTGTGGAGTTACTCTCTTTTTTGCCTTCTGACTTCTTT
Host Sequence
Chromosome
chr5
Cytoband
q35.1
Reference genome
End
170085286/170658282 (Hg38)
Orient
+
Location type
Intron
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-10397/Upstream/629716; hsa-mir-10523/Downstream/728374;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/153815, chr5-CpG: 28/Downstream/86270
Upstream sequence
TTCACTTTAAAGCCTAAGCATTGTATAATATTAAATAAGAGGAGGGGATGGGAGTGAAATGAGAATGGTATGAACAGAGGGAAATGAGAACACACCCAGA
Downstream sequence
ccttcttgctgggggcaggtactccctgcatagtcccaaagcagcataaggcatcatatggtgagggggctgagtgcactagctcaggtttctcctaaaa
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).