Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017745
Fusion event
HBV-KCNIP4 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
B
Reference genome
Region type
X protein;
Start
1748
Integrated sequence
CTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTGTATTTAAAGACTGGGAGGAGTTGGGGGAG| |GAGATTAGATTAAAGGTCTTTGTACTGGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATG
Host Sequence
Chromosome
chr4
Cytoband
p15.2
Reference genome
Start
End
21877732/21876109 (Hg38)
Location type
Intronic
Fragile sites / regions
Target gene
Nearest miRNA
hsa-mir-12113/Upstream/411351; hsa-mir-12115/Downstream/639203;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/1175396, chr4-CpG: 95/Downstream/72353
Upstream sequence
AAAAAAAAACATATTGGTAGGCCCCTAACAGGAAAATGAGAATCAGGTATTATCTTAAAGTATCCATCTTCCACAACAGAAAGGAGCAAATGGCATGGTG
Downstream sequence
tcatattgaaaaaagctataaaaatattacaaaagtaaaattgtgacatagtgatacacttcactatgaacgtattaactatcaatatgtagaaatgggt
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.