Basic Information
VIS ID
TVIS30002889
Fusion event
HIV-PTPN2 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
p11.21
Reference genome
GRCh37/hg19
Start
12858442/12858443 (Hg38)
End
12858442/12858443 (Hg38)
Orient
-
Location type
Intronic
Target gene
PTPN2
miRNAs that regulate target gene
hsa-mir-210-3p ; hsa-mir-524-5p ; hsa-mir-520d-5p ; hsa-mir-1264 ; hsa-mir-1202 ; hsa-mir-122-5p ; hsa-mir-1267 ; hsa-mir-129-5p ; hsa-mir-143-5p ; hsa-mir-3135b ; hsa-mir-3194-3p ; hsa-mir-3652 ; hsa-mir-3672 ; hsa-mir-367-5p ; hsa-mir-3972 ; hsa-mir-431-5p ; hsa-mir-4423-5p ; hsa-mir-4430 ; hsa-mir-4755-3p ; hsa-mir-5006-5p ; hsa-mir-504-3p ; hsa-mir-5691 ; hsa-mir-5698 ; hsa-mir-6501-5p ; hsa-mir-6805-3p ; hsa-mir-6864-3p ; hsa-mir-744-3p ; hsa-mir-8055
Nearest miRNA
hsa-mir-3976/Upstream/1203502; hsa-mir-1-2/Downstream/601504;
Nearest TSS
ENST00000575820/Upstream/14462; ENST00000592170/Downstream/4030;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/80329, chr18-CpG: 128/Downstream/24843
Nearest cancer related gene
PTPN2(TSG, No orient, 0)
Upstream sequence
CCAATTTAATATCTGAATAAGCTGCATGAATCAGAACAAAAAATAAAATCACCGCATGATGATGAATACACCAAAGAACTCTAGTATTATAATTGTTCAC
Downstream sequence
ACAATTGTGTGCGTCTGTGTGTGTATACATCATAATCTAAATGTCCAACAACAGGGAACTTATGCAAAAGAGTGGTATATCCAAAGCCACTGTCAAAGCa
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate