RALGPS1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018910
Fusion event
HBV-RALGPS1 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1807
Integrated sequence
CTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCA| |CCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGA
Host Sequence
Chromosome
chr9
Cytoband
q33.3
Reference genome
GRCh37.55
Start
129684753/126922474 (Hg38)
End
129684753/126922474 (Hg38)
Location type
Intron1
Target gene
RALGPS1
miRNAs that regulate target gene
hsa-mir-377-3p ; hsa-mir-342-3p ; hsa-mir-3120-3p ; hsa-mir-8485
Nearest miRNA
hsa-let-7a-1/Upstream/2228676; hsa-mir-12126/Downstream/768213;
Nearest TSS
ENST00000422679/Upstream/7024; ENST00000477700/Downstream/39751;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/6744, chr9-CpG: 161/Downstream/301811
Upstream sequence
tgataatattaatttttccaatccatgaacatgggatgtattattatttatttttgtcttctttcatatctttcatcagtgtttttagttttctttctag
Downstream sequence
TTTTCTGTTGATAAATTAGGGTTGGTTCAAGTTAACGTTGACCACCTTGTTTCATCtttgtcagcctcccttgtagttaggggtggctgtatgactcaat
Reference
Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.
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