RALGAPA2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10001695
Fusion event
HBV-RALGAPA2 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
chr20
Cytoband
p11.23
Reference genome
GRCh37/hg19
Start
20441401/20460757 (Hg38)
End
20441401/20460757 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA20A
Target gene
RALGAPA2
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-let-7c-5p ; hsa-mir-6763-5p ; hsa-mir-3150a-3p ; hsa-mir-491-5p ; hsa-mir-6825-5p ; hsa-mir-92a-2-5p ; hsa-mir-939-5p ; hsa-mir-1343-5p ; hsa-mir-3175 ; hsa-mir-3616-3p ; hsa-mir-576-5p ; hsa-mir-4263 ; hsa-mir-627-3p
Nearest miRNA
hsa-mir-103a-2/Upstream/1990066; hsa-mir-1-1/Downstream/5747429;
Nearest TSS
ENST00000382410/Upstream/92636; ENST00000432942/Downstream/51843;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/8072, chr20-CpG: 106/Downstream/251347
Upstream sequence
AAAACATGTTTACTATCCTACTGAGTTATTGTCAGGGGCATTTTAGTTAAACAATTGGTCTACATAACAAACCCACTGAGGAAACTGGCGGTTCAGCTCG
Downstream sequence
TGCACACATATGGGCATACCAGCTCTGACAGCACACAGCAGCTCTGGAACTCCAAAGCATGACTGACCTGCTACCTTATTGAATCTTGATGACCTAAAAA
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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