Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017525
Fusion event
HBV-SEL1L2 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
pre-S1/pre-S2/S;Polymerase;
Start
458
Integrated sequence
TGTCCTGGTTATCGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTTCATCCTGCTGCTATGCCTCATCTTCTTGTTGGTTCTTCTGGACTACCAAG| |GTATGTTGCCCGTTTGTCCTCTACTTCCAGGAACATCAACTACCAGCACGGGACCATGCAAGACCTGCACGATTCCTGCTCAAGGAACCTCTATGTTTCC
Host Sequence
Chromosome
chr20
Cytoband
p12.1
Reference genome
Start
End
13885303/13904657 (Hg38)
Location type
Intronic
Target gene
Nearest miRNA
hsa-mir-103a-2/Upstream/3254962; hsa-mir-1-1/Downstream/4565958;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/119394, chr20-CpG: 101/Downstream/90465
Upstream sequence
GCCCCCCACCTCCACCTTTTGCTATTTGCACCTTTTGTTATTGGCCATTTGGCTGGAACAAAGTCACTAATATTCTTAGTAGTTTATTTCTATATATAGA
Downstream sequence
GGGATCCTGGTACTCCTCTCACCCTTGTAACGTATATATAAATGGCTAAATTGGCTCTTTTTAAGGATATCTTCTGCCAATATTAGATTTTTATTTTTCT
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.