RNF220 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000530
Fusion event
HBV-RNF220 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
chr1
Cytoband
p34.1
Reference genome
GRCh37/hg19
Start
45015935/44550263 (Hg38)
End
45015935/44550263 (Hg38)
Location type
Intronic
Target gene
RNF220
miRNAs that regulate target gene
hsa-mir-93-5p ; hsa-mir-30a-5p ; hsa-mir-30c-5p ; hsa-mir-30d-5p ; hsa-mir-30b-5p ; hsa-mir-30e-5p
Nearest miRNA
hsa-mir-12136/Upstream/4711; hsa-mir-101-1/Downstream/6509574;
Nearest TSS
ENST00000473358/Upstream/137565; ENST00000496262/Downstream/64002;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/132031, chr1-CpG: 56/Downstream/66804
Downstream sequence
TCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGA
Junction sequence
CTCCTGATTCCTGACTGGTGTCCCTCCACAGTCCCCTTGGCAAAGCCAAGAGGGCCAGGGGCTTTTGGAGAAGTGGGCCAAGAAGGCTCGAGAAGAAGCCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGA
* 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.
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