RALGPS1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016375
Fusion event
HBV-RALGPS1 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
22267523
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
2511
End
2546
Orient
+
Integrated sequence
TGTCTTTAATCCTCATTGGAAAACACCATCTTTTCC
Host Sequence
Chromosome
chr9
Cytoband
q33.3
Reference genome
GRCh37/hg19
Start
129686203/126923924 (Hg38)
End
129686238/126923959 (Hg38)
Orient
+
Location type
Intronic
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/2230126; hsa-mir-12126/Downstream/766728;
Nearest TSS
ENST00000422679/Upstream/8474; ENST00000477700/Downstream/38266;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/8194, chr9-CpG: 161/Downstream/300326
Nearby gene
ZBTB34(-38082) ; RALGPS1(+38265) ;
Upstream sequence
TCCTGGTGTGTTGGATCTAGAAAGAGATCTGTAAGCAGAGAATTGAGTAATCTCTCTCTGAGAGGAAGTCACAGAAGTGAACACTTCACCCAGAATATAT
Downstream sequence
CTTTGGCAATGAGCATCACTATGGCCTTTGTGCTTATCACATATAGTGTCCGTCTATCCTGATGGTTACCAATCATTGAGTCTACTCTTTCCACTTTCCA
Target sequence
TTTAATGTATCTCTGGCTATATCTGCTATGGGACA
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.
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