Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017912
Fusion event
HBV-HRG 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
X protein;
Start
1776
Integrated sequence
GCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTGTATTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGATTAAAGGTCTTTGTACTGG| |GAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCCACTGTTCAAGCCTCCAAG
Host Sequence
Chromosome
chr3
Cytoband
q27.3
Reference genome
End
186386780/186668991 (Hg38)
Location type
Exonic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-let-7g/Upstream/901087; hsa-mir-1248/Downstream/117681;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/98142, chr3-CpG: 20/Downstream/103822
Nearest cancer related gene
HRG(TSG, No orient, 0)
Upstream sequence
cacttgcacttgggaggcggaggtttcagtgagccaagattgcgccactgaactgcagtctgggtgacacagggagactgtgtctcagaaacaaacaaaa
Downstream sequence
CTATCCAGGAAATACTGGAATGACTGTGAGCCACCTGATTCCAGACGTCCATCTGAAATAGTAAGTAAAGAGGGCACCTTCACTCTGCTCTTTTCATTCT
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.