Basic Information
VIS ID
TVIS10005277
Fusion event
HBV-SOX2-OT integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
29861854
Virus Sequence
Virus name
HBV
Reference genome
AP011098
Start
2353
Orient
-
Integrated sequence
TTTGGTGTCTTTTGGAGTGTGGATTCGCACTCCTCCCGCTTACAGACCACCAAATGCCCCTATCTTATCAACACTTCCGGAAACTACTGTTGTTAGACGA| |CGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCGGGAATCTCAATGTTAGT
Host Sequence
Chromosome
chr3
Cytoband
q26.33
Reference genome
GRCh37/hg19
Start
180893164/181175376 (Hg38)
End
180893164/181175376 (Hg38)
Orient
-
Location type
Intronic
Target gene
SOX2-OT
miRNAs that regulate target gene
hsa-mir-375
Nearest miRNA
hsa-let-7g/Upstream/4660225; hsa-mir-1224/Downstream/2711424;
Nearest TSS
ENST00000440867/Upstream/185602; ENST00000325404/Downstream/267110;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/185537, chr3-CpG: 100/Downstream/519850
Upstream sequence
ttgcaaatcaggcagcctccagaattgaatgcagtttgaacacttagcagtctattagtgcttgaagtatggccactgggattggccaacactcagctat
Downstream sequence
ATGTGTGTGATGTTTTTCTCCAACTTTTTCTTTTTCTTCTATGCTTTGGGATCTTGTGGGAAGTACCTCAAGAAAACCTGAAGATGCTAATTTTTAGACA
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).
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