Basic Information
VIS ID
TVIS10014986
Fusion event
HBV-chr4 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
HBVgp4 precore/core protein
Start
1902
Orient
+
Integrated sequence
GCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGC| |ATGGACATCGACCCTTATAAAGAATTTGGAGCTACTGTGGAGTTACTCTCGTTTTTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCG
Host Sequence
Chromosome
chr4
Cytoband
q12
Reference genome
GRCh37/hg19
Start
57610960/56744794 (Hg38)
End
57610960/56744794 (Hg38)
Orient
+
Location type
Intergenic
Fragile sites / regions
FRA4B
Nearest miRNA
hsa-mir-12113/Upstream/4032047; hsa-mir-1243/Downstream/4177825;
Nearest TSS
ENST00000502981/Upstream/62895; ENST00000503522/Downstream/67002;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/88257, chr4-CpG: 45/Downstream/76650
Upstream sequence
TGGAAAATGCTCAGTTCCACAAAATATCTGCGTCCAAATACTTTGAGTGCACAGCTCTGGCATCAGGTTACTGTGAGGACAGACCCTGAGATGGATTTCT
Downstream sequence
ACTGAGaactaaaaataaaatcctaagccctcaaccaactgaacagaccccctcttggccaaggggaccccagagaaaccttaaaaacttgagttcccag
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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