Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017481
Fusion event
HBV-NEK11 integration
Validated
No
Detection method
TS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HBV
Subtype
C
Reference genome
Region type
core protein;X protein;
Start
1827
Integrated sequence
GACTGGGAGGAGTTGGGGGAGGAGATTAGATTAAAGGTCTTTGTACTGGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCA| |CCTCTGCCTAATCATCTCATGTTCATGTCCCACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATTT
Host Sequence
Chromosome
chr3
Cytoband
q22.1
Reference genome
End
130847595/131128751 (Hg38)
Location type
Intronic
Target gene
Nearest miRNA
hsa-let-7g/Upstream/1856508; hsa-mir-1224/Downstream/857104;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/101755, chr3-CpG: 53/Downstream/232983
Upstream sequence
ATATTATAGAAGAGtataataattattaattttaaaCAGTAAATATAATTGCCCTAAAACTTGGCTTATACTTTCCTCTAAATTCCTCAGGAAATTCTCA
Downstream sequence
aaccattttgtattcccactagcagcgaatgagagtttctgttactccacatccttgtgagcatttggtgttgtcagtgtctcgatttgggccgttctaa
Reference
Chiu, Y. T., et al. Novel pre-mRNA splicing of intronically integrated HBV generates oncogenic chimera in hepatocellular carcinoma. J Hepatol ,2016,64(6): 1256-1264.