Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000583
Fusion event
HBV-GPC5 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
AF090842.1;AB033554.1;AB014381.1;M32138.1;AB032431.1;AB036910.1;AB064310;AY090454.1
Host Sequence
Chromosome
chr13
Cytoband
q31.3
Reference genome
Start
End
92547780/91895526 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-217 ; hsa-mir-190b ; hsa-mir-190a-5p ; hsa-mir-20a-3p ; hsa-mir-186-5p ; hsa-mir-3133 ; hsa-mir-5582-3p ; hsa-mir-548x-3p ; hsa-mir-548j-3p ; hsa-mir-548aq-3p ; hsa-mir-548am-3p ; hsa-mir-548aj-3p ; hsa-mir-548ah-3p ; hsa-mir-548ae-3p ; hsa-mir-6868-3p ; hsa-mir-6749-3p ; hsa-mir-642a-5p ; hsa-mir-3124-3p ; hsa-mir-4469 ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-5193 ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-6809-3p ; hsa-mir-1238-3p ; hsa-mir-4753-3p ; hsa-mir-670-3p ; hsa-mir-942-5p ; hsa-mir-130b-5p ; hsa-mir-4637 ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-297
Nearest miRNA
hsa-mir-1297/Upstream/544135; hsa-mir-1267/Downstream/594637;
Nearest CpG islands
Nearest cancer related gene
GPC5(TSG, No orient, 0)
Downstream sequence
TACAAGCTTGCAAAAAGGTCTTTGTAGCCTTACACAAAAAAACATTTCTGTGAGAATATCTGCCCAGAGACTGCTTGTCCAACCTCAGCACCTTGTAGTCAGGGTAAA
Junction sequence
GGGGGCTTTTTGGGGCTTGCTGCCCCTTTTACACAATGTGGCTATCCTGCCTTACAAGCTTGCAAAAAGGTCTTTGTAGCCTTACACAAAAAAACATTTCTGTGAGAATATCTGCCCAGAGACTGCTTGTCCAACCTCAGCACCTTGTAGTCAGGGTAAA
* Color:
Human Sequence
/
Virus Sequence
/
Overlapped sequence
/
Unknown sequence
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.