hsa-mir-4753-3p _LIHC.png
PTPRM _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10018934
Fusion event
HBV-PTPRM 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
1711
Integrated sequence
GGAGACCACCGTGAACGCCCACCAAATATTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTC| |AAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAG
Host Sequence
Chromosome
chr18
Cytoband
p11.23
Reference genome
GRCh37.55
Start
7596790/7596792 (Hg38)
End
7596790/7596792 (Hg38)
Location type
Intron1
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/1222367; hsa-mir-1-2/Downstream/3162792;
Nearest TSS
ENST00000575820/Upstream/30010; ENST00000578916/Downstream/152651;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/27960, chr18-CpG: 38/Downstream/770483
Upstream sequence
gcccagccAATAATTTACTTTCTGTGTAAATAACAATCATTTTTGTTTTGTGTGTGAGTGCGTGTCAATCTATACAAGTAGGTCCTTACAAAGAATATTT
Downstream sequence
CACTCACTCCTTTCCTTCTCTTCAAAGTATTTTCCCTTACTTTCTTCATTTATCttttttttttcctttattttcttttttttcagacagtttctctgtc
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.
Curate