hsa-mir-4753-3p _LIHC.png
PTPRM _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016455
Fusion event
HBV-PTPRM integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
22267523
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
545
End
580
Orient
+
Integrated sequence
AACCTCTATGTATCCCTCCTGTTGCTGTACCAAACC
Host Sequence
Chromosome
chr18
Cytoband
p11.23
Reference genome
GRCh37/hg19
Start
7803889/7803891 (Hg38)
End
7803924/7803926 (Hg38)
Orient
-
Location type
Intronic
Target gene
PTPRM
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-205-5p ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-580-3p ; hsa-mir-4753-3p ; hsa-mir-452-3p ; hsa-mir-6770-5p ; hsa-mir-1253 ; hsa-mir-1279 ; hsa-mir-130b-5p ; hsa-mir-4461 ; hsa-mir-1264
Nearest miRNA
hsa-mir-3976/Upstream/1429466; hsa-mir-1-2/Downstream/2955658;
Nearest TSS
ENST00000575820/Upstream/29751; ENST00000578916/Downstream/142944;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/235059, chr18-CpG: 38/Downstream/563349
Upstream sequence
AACAGGAATTCAAAGAGCTAACTAGAGGGTCATAACACAATACAGTCAGCATTGAATGGACTGGAGTTcaacaacaacaacaacaacaacaacaacaaca
Downstream sequence
CAGAAGATCAAAAAAGCAATTCTGAAAAGAATTTGATTACAGGctgttcaagatattgatcaatatttggatgaagacTCTTTCATCTGGTGAATACCCA
Target sequence
TAGTAAAGAAAAAAAAGAATGTCTGTATGTGTAGG
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.
Curate