Basic Information
VIS ID
TVIS10014966
Fusion event
HBV-chr3 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
HBVgp3 X protein;HBVgp4 precore/core protein
Start
1816
Orient
+
Integrated sequence
CTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCA| |TGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCC
Host Sequence
Chromosome
chr3
Cytoband
p11.1
Reference genome
GRCh37/hg19
Start
90335043/90285893 (Hg38)
End
90335043/90285893 (Hg38)
Orient
+
Location type
Intergenic
Nearest miRNA
hsa-let-7g/Upstream/3059616; hsa-mir-12124/Downstream/6074071;
Nearest TSS
ENST00000440867/Upstream/1178217; ENST00000478400/Downstream/3625264;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/1170936, chr3-CpG: 39/Downstream/3687817
Upstream sequence
ttttccaccataggcctcaaggctctccaaatgtccacttgcagattctacaaaaagagtgtttcaaaagtcctctatcaaaagaaaggttcaactctgt
Downstream sequence
ttcaactctttgagatgaatgtaggcatcacaaaaaagtttctctgaatgcctctgtctagttttatgtgaagatatttcctatttcatcataggcctca
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.
Curate