GC _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017747
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
B
Reference genome
DQ089769.1
Region type
X protein;
Start
1629
Integrated sequence
CTCTCTTTACGCGGTCTCCCCGTCTGTGCCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCC| |GACAGGTCTTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTGTATTTAAAGA
Host Sequence
Chromosome
chr4
Cytoband
q13.3
Reference genome
GRCh37/hg19
Start
72618330/71752613 (Hg38)
End
72618330/71752613 (Hg38)
Location type
Exonic
Target gene
GC
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-12113/Upstream/5475685; hsa-mir-1243/Downstream/4820955;
Nearest TSS
ENST00000502981/Upstream/413560; ENST00000344413/Downstream/1865;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/564861, chr4-CpG: 30/Downstream/279234
Upstream sequence
TAGCAGTTAATTTTCTACAAATCATCCTCAGGGTAAAGTGAGTCATATTCTGTTTCCGCAGGGTGCTCTGGTCTGACCTGTTTGGCTCCCCCCAGGTGGT
Downstream sequence
GGCATCAGGCAATTTTGCTTTTAGTCGCTCTGCCAGTCTGAAAAACCATTTAAATGTAAGGTCTTACTACATGTATTTATTTTATACAAATTTCTAATGC
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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