Basic Information
VIS ID
TVIS10020532
Fusion event
HBV-LINCR-0002 integration
Validated
No
Detection method
VirusScan
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2016
PubMed ID
27339696
Virus Sequence
Virus name
HBV
Reference genome
NC_003977.1
Start
1185
End
2281
Orient
+
Integrated sequence
GCTGACGCAACCCCCACGGGTTGGGGCTTGGCCATAGGCCATCGGCGCATGCGTGGAACCTTTGTGGCTCCTCTGCCGATCCATACTGCGGAACTCCTAGCAGCTTGTTTTGCTCGCAGCCGGTCTGGAGCGAAACTTATCGGAACCGACAACTCAGTTGTCCTCTCTCGGAAATACACCTCCTTTCCATGGCTGCTAGGCTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTCTACGTCCCGTCGGCG
Host Sequence
Chromosome
chr3
Cytoband
q28
Reference genome
GRCh37/hg19
Start
191204384/191486595 (Hg38)
End
191205432/191487643 (Hg38)
Orient
+
Location type
Intronic
Target gene
LINCR-0002
Nearest miRNA
hsa-let-7g/Upstream/1656586; hsa-mir-3137/Downstream/3646863;
Nearest TSS
ENST00000440867/Upstream/25432; ENST00000438488/Downstream/69681;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/156674, chr3-CpG: 24/Downstream/375496
Upstream sequence
AGTCCCTATAACTCATGATACTACCTTCTCTGCTTGCATCGTGGGTCACACATGCACTGACTCTGCAAAGGTGGAATGCTTTGGTCATGGCAAAGCCACT
Downstream sequence
gctatagtaacccaaatagcatggtactggcataaaaacagacacatacagaccagtggaacagaacagagaaaccaaaaacaaatacagacacctacag
Target sequence
aacttcaggccaatatcccaatgaacatttatgcaaaaattctcagcaaaatattagcaaactgaactgaacatcacattaaaaagatcgttcgttataaccaagtgggatttatctcagggaagcaacatatacaaatcaatcaatgtgatacatcatgtcaagagaataaaggacaaaaacattatggttagttcaactgatgctgaaaaagcatttgataaaattcacaatcccttcatgataaaaacactc
Reference
Cao, S., et al.Divergent viral presentation among human tumors and adjacent normal tissues. Sci Rep,2016, 6: 28294.
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