RIMS1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016185
Fusion event
HBV-RIMS1 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
22267523
Virus Sequence
Virus name
HBV
Reference genome
AY033073.1
Start
1665
Orient
+
Integrated sequence
CAGGACTCCTAGGACCCCTGCTCGTGTTACAGGCGGGGTTTTTCTTGTTGACAAAAATCCTCACAATACCACAGAGTCTAGACTCGTGGTGGACTTCTCT| |CAATTTTCTAGGGGGAACACCCGTGTGTCTTGGCCAAAATTCGCAGTCCCAAATCTCCAGTCACTCACCAACTTGTTGTCCTCCAATTTGTCCTGGTTAT
Host Sequence
Chromosome
chr6
Cytoband
q13
Reference genome
GRCh37/hg19
Start
72677722/71968019 (Hg38)
End
72677722/71968019 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA6D
Target gene
RIMS1
Nearest miRNA
hsa-mir-10398/Upstream/564398; hsa-mir-10524/Downstream/999668;
Nearest TSS
ENST00000381078/Upstream/80995; ENST00000524197/Downstream/214733;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/80954, chr6-CpG: 100/Downstream/214315
Nearby gene
LINC00472(-547274) ; RIMS1(+244791) ;
Upstream sequence
aacatacttcagatagtagttattttttataaatgcaaatagttgattgatcattacatccATTCACAACTCCTCCTGTCTTTTATGTTTGAGATGTTAA
Downstream sequence
TCCATGAAAGCTCTTAAGAACCAGATTCATATTTGAAGCCTTCTGGATCCTAAGGGGCATTCTGTTTAGCAAAGACTAAGATGTGAGGTCTAAGTTTTAT
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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