Basic Information
VIS ID
TVIS10019109
Fusion event
HBV-SMC5-AS1 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
22634754
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Host Sequence
Chromosome
chr9
Cytoband
q21.12
Reference genome
GRCh37/hg19
Start
72862127/70247211 (Hg38)
End
72862216/70247300 (Hg38)
Location type
Intron2
Target gene
SMC5-AS1
Nearest miRNA
hsa-mir-101-2/Upstream/29013376; hsa-let-7a-1/Downstream/562675;
Nearest TSS
ENST00000422679/Upstream/71323; ENST00000618375/Downstream/11566;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/202595, chr9-CpG: 60/Downstream/11473
Upstream sequence
GACTATGTGGTGACAGGAGCTTGGTCAGCTAAGGCCGCAGAAGAAGCCAAGAAGTTTGGGACTATAAATATCGTTCACCCTAAACTTGGGAGTTATACAA
Downstream sequence
actttatcagatgtttatttgcatatattgagataattatttcttccctttgatccattaatatggtaaattacatATTTTCCATTAAATATGTATACGT
Target sequence
tctaggtttttgatatatagcagttatcaagttaagaaacttcagtctcattcctagttttctaagagtttattacaaatagacattca
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.
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