Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005274
Fusion event
HBV-C3orf52 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
1848
Orient
-
Integrated sequence
GAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATG| |TTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATTTGGAGCTTCTGTGGAGTTACTC
Host Sequence
Chromosome
chr3
Cytoband
q13.2
Reference genome
End
111832750/112113903 (Hg38)
Orient
+
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-218-5p ; hsa-mir-4446-5p ; hsa-mir-629-3p ; hsa-mir-4279 ; hsa-mir-627-3p ; hsa-mir-4490 ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-513c-3p ; hsa-mir-513a-3p ; hsa-mir-3606-3p ; hsa-mir-140-3p ; hsa-mir-188-3p ; hsa-mir-3674 ; hsa-mir-4433a-5p ; hsa-mir-4464 ; hsa-mir-4476 ; hsa-mir-4748 ; hsa-mir-5087 ; hsa-mir-5588-3p ; hsa-mir-6876-5p
Nearest miRNA
hsa-let-7g/Upstream/1005; hsa-mir-12124/Downstream/623186;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/27180, chr3-CpG: 40/Downstream/71632
Upstream sequence
gcagagaataatgtttgcTGGGCACCCGGCAGAGGGCCTCCCTTCTGTACCATAACTCAGCATAGAAAGGGAAGGTTACATGCCCTGGaacaaaaatacc
Downstream sequence
TCTGATACCTCGCTCGGAGGCTTGTTTGCTCTTATTTAGCCCCTAATGCCAACAATCTTGAATATTTTATGTTCTCATCCACAGTCCATCAGAATCACTT
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).