BCAS3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000576
Fusion event
HBV-BCAS3 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2016
PubMed ID
27703150
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
chr17
Cytoband
q23.2
Reference genome
GRCh37/hg19
Start
59142773/61065412 (Hg38)
End
59142773/61065412 (Hg38)
Location type
Intronic
Target gene
BCAS3
miRNAs that regulate target gene
hsa-mir-1278 ; hsa-mir-1285-3p ; hsa-mir-2861 ; hsa-mir-3187-5p ; hsa-mir-326 ; hsa-mir-330-5p ; hsa-mir-3664-5p ; hsa-mir-3667-3p ; hsa-mir-378g ; hsa-mir-4486 ; hsa-mir-4714-5p ; hsa-mir-514a-5p ; hsa-mir-5189-5p ; hsa-mir-612 ; hsa-mir-6734-3p ; hsa-mir-6860 ; hsa-mir-6883-3p
Nearest miRNA
hsa-mir-10226/Upstream/1022307; hsa-mir-1250/Downstream/1878803;
Nearest TSS
ENST00000595228/Upstream/48448; ENST00000588008/Downstream/4710;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/387293, chr17-CpG: 720/Downstream/330287
Upstream sequence
AAACTACATTCCCAAGCAGAATTTCATCCTTATATCCTGAGTGCTTTCTGATCAGAAACAGAGTTTGGTAAATAGCCCTTGCTTATTGTATGGC
Junction sequence
AAACTACATTCCCAAGCAGAATTTCATCCTTATATCCTGAGTGCTTTCTGATCAGAAACAGAGTTTGGTAAATAGCCCTTGCTTATTGTATGGCCGCCAAATGCCCCTATCTTATCAACACTTCCGGAAACTACTGTTGTTAGACGACGAG
* 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.
Curate