Basic Information
VIS ID
TVIS30002880
Fusion event
HIV-PTPRM integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr18
Cytoband
p11.23
Reference genome
GRCh37/hg19
Start
8046440/8046442 (Hg38)
End
8046440/8046442 (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/1672017; hsa-mir-1-2/Downstream/2713142;
Nearest TSS
ENST00000575820/Upstream/28619; ENST00000578698/Downstream/2922;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/477610, chr18-CpG: 38/Downstream/320833
Upstream sequence
TCAGTAGGTATATGTATCTCTCAGTTGAGAACCTGAAAGAGAAGACAGTTATTTATTGACCTTCTAAAACCTCCACATATTAATGCATAGCTGAGTATAC
Downstream sequence
CACTTACCCTCTGTGTATCTTGCATCTATTTTCTATCTTGTATCCATCCTGTGTCAGCACTGTTGCGTTGATGTTTTTAAATCAGTTCCCAACTTGCAGC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate