PRDM6 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10002147
Fusion event
HBV-PRDM6 integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
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
chr5
Cytoband
q23.2
Reference genome
GRCh37/hg19
Start
122517554/123181860 (Hg38)
End
122517554/123181860 (Hg38)
Location type
Intronic
Target gene
PRDM6
miRNAs that regulate target gene
hsa-mir-7-5p ; hsa-mir-641 ; hsa-mir-3617-5p ; hsa-mir-3688-3p ; hsa-mir-4802-3p ; hsa-mir-5093 ; hsa-mir-6728-5p ; hsa-mir-4503 ; hsa-mir-6792-5p ; hsa-mir-4311 ; hsa-mir-5187-5p ; hsa-mir-6077
Nearest miRNA
hsa-mir-10397/Upstream/4027144; hsa-mir-103a-1/Downstream/5915828;
Nearest TSS
ENST00000502646/Upstream/8459; ENST00000508708/Downstream/211589;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/82004, chr5-CpG: 23/Downstream/219072
Nearest cancer related gene
PRDM6(OG, No orient, 0)
Upstream sequence
CACACCTGGGACTCCACCTGCAGCTACCACACATCAGACCCCTGTGACCGATCACCATCCACAGTCACCACATCAGACCCCACGACCGCCATCCACAGTC
Downstream sequence
CTGCCAGTGAAGGGAGAAGTTCATAAAAGATAGTCATTGTCCCTCTTCTCCTCAATAATTAGTTACTTTATTCAGCATTCTTAACTATTCTCCAACATAG
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.
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