RCSD1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10002325
Fusion event
HBV-RCSD1 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
chr1
Cytoband
q24.2
Reference genome
GRCh37/hg19
Start
167635166/167665929 (Hg38)
End
167635166/167665929 (Hg38)
Location type
Intronic
Target gene
RCSD1
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-6848-3p ; hsa-mir-6843-3p ; hsa-mir-4684-5p ; hsa-mir-3663-5p ; hsa-mir-490-3p
Nearest miRNA
hsa-mir-101-1/Upstream/1511131; hsa-mir-1182/Downstream/332731;
Nearest TSS
ENST00000473358/Upstream/35255; ENST00000487858/Downstream/55263;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/35327, chr1-CpG: 52/Downstream/48311
Upstream sequence
gagacagagtctcactccgttgcccagtctggagtgcggtggcatgatctccactcactgcaacctctgcctcccaggttccagagattctcgtgcctca
Downstream sequence
gcctcctgagtagctgagattacaggcgtgtgccaccacacccggctaatttttgtatttttagtcgagacggggtttggccatgtttgccaggctgttc
Reference
Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.
Curate