Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017698
Fusion event
HBV-SPAG4 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
1631
Integrated sequence
CTCTTTACGCGGTCTCCCCGTCTGTGCCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCGA| |CAGGTCTTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTGTATTTAAAGACT
Host Sequence
Chromosome
chr20
Cytoband
q11.22
Reference genome
Start
End
34203822/35615900 (Hg38)
Location type
5UTR
Target gene
Nearest miRNA
hsa-mir-103a-2/Upstream/161803; hsa-mir-1-1/Downstream/2900663;
Nearest CpG islands
chr20-CpG: 67/Target, None/Upstream, None/Downstream
Upstream sequence
tgttgttgtttttaagatggagtctcgctctgtcacctaggctggagtgcagtggtactatctcggctcactgcaacttctgcctcccagttcaagggat
Downstream sequence
GTCCGTGGGGTCCCCGCGGCGCGCAGCGGCTGAAGGAGGCCCCAGGGCCTTGGCGACCGCAGCGGCGGCTTTAGCGTCAGTGACTAGGCAGCAGGGGGTC
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.