Basic Information
VIS ID
TVIS10015001
Fusion event
HBV-LINC01499 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
22634754
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
HBVgp1 Polymerase;HBVgp4 precore/core protein
Start
2335
Orient
+
Integrated sequence
AGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTTATAGACCACCAAATGCCCCTATCCTATCAACACTTCCGG| |AGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAATC
Host Sequence
Chromosome
chr11
Cytoband
p12
Reference genome
GRCh37/hg19
Start
41768443/41746893 (Hg38)
End
41768443/41746893 (Hg38)
Orient
+
Location type
Intronic
Target gene
LINC01499
Nearest miRNA
hsa-mir-1343/Upstream/5736689; hsa-let-7a-2/Downstream/1812763;
Nearest TSS
ENST00000527297/Upstream/26450; ENST00000532199/Downstream/109027;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/5236426, chr11-CpG: 49/Downstream/1564996
Upstream sequence
ttgtgcactggaaataaaaataatacagctgctatggaaaacagtatgctgcctaaaaaaataaaaataaaattgccacacaatccagcaattccatttt
Downstream sequence
tgtgtatataccgaaaagtattaccaacaggctctcaaagagatatttgcacacccacattcatagcaccaatattcattacagctaaaatgtaaagcaa
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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