GC _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017825
Fusion event
HBV-GC integration
Validated
No
Detection method
TS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
26867494
Virus Sequence
Virus name
HBV
Subtype
C
Reference genome
DQ089769.1
Region type
X protein;Polymerase;
Start
1616
Integrated sequence
CCACGGGGCGCACCTCTCTTTACGCGGTCTCCCCGTCTGTGCCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACC| |ACCGTGAACGCCCGACAGGTCTTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACT
Host Sequence
Chromosome
chr4
Cytoband
q13.3
Reference genome
GRCh37/hg19
Start
72629250/71763533 (Hg38)
End
72629250/71763533 (Hg38)
Location type
Intronic
Target gene
GC
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-12113/Upstream/5486605; hsa-mir-1243/Downstream/4810035;
Nearest TSS
ENST00000502981/Upstream/9055; ENST00000344413/Downstream/5867;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/575781, chr4-CpG: 30/Downstream/268314
Upstream sequence
AGCTAAAGATAAGGGAAGAAAGGCAGTTTTTAGTTTCCCAAAATTTTATTTTTGGTGAGATTTTATTTTGTTTTTCTTTTAGGTGAATATTGGCTTGGAA
Downstream sequence
GGTCAAGACTCATTGAATACTGTATAAATGGCAAAAATAGGGACTATTAATTTCATGATTTTTTAATGAATAGGAAACTGAACACTGGTGAAAGGAACTT
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.
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