Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006096
Fusion event
HBV-KCNQ3 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
1688
Orient
+
Integrated sequence
CTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAGGTCTTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACG| |ACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGC
Host Sequence
Chromosome
chr8
Cytoband
q24.22
Reference genome
End
133316339/132304092 (Hg38)
Orient
-
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-574-5p ; hsa-mir-4455 ; hsa-mir-629-3p ; hsa-mir-4713-5p ; hsa-mir-6867-5p ; hsa-mir-6752-3p ; hsa-mir-192-3p ; hsa-mir-6867-3p ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-7113-3p ; hsa-mir-4469 ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-4760-3p ; hsa-mir-223-5p ; hsa-mir-297 ; hsa-mir-511-3p ; hsa-mir-567
Nearest miRNA
hsa-mir-1204/Upstream/2295639; hsa-mir-10400/Downstream/742389;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/174523, chr8-CpG: 149/Downstream/175772
Upstream sequence
gcgtggtggcgtgggcctataatcccagctactcagggggctgaggcaggagaatcgcttgaacccaggaggcagatgttgcagtgagccaagactgagc
Downstream sequence
taaacctgtacacatggacacagagaatggaataatagacagtggagactctgaaaggtgggagggtggaagggaggtgaagaatgagaaatcacctatt
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).