Basic Information
VIS ID
TVIS30010697
Fusion event
HIV-PTPRA 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
chr20
Cytoband
p13
Reference genome
GRCh37/hg19
Start
2866353/2885707 (Hg38)
End
2866353/2885707 (Hg38)
Orient
+
Location type
Intronic
Target gene
PTPRA
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-1292/Upstream/232865; hsa-mir-1-1/Downstream/1031787;
Nearest TSS
ENST00000382410/Upstream/12024; ENST00000356147/Downstream/37500;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/11718, chr20-CpG: 98/Downstream/159924
Upstream sequence
CCAACAAACAGAGTCAAACCTTCCTCTGATTAGTGTAGATCTGATTACTGGTTTATAggatataattggcaaatttagaatgtgaaaaatattataggac
Downstream sequence
aaatgaacccatttacttcaaatgaatggcaagaaaaaaaaagtacacgaactgctacagattaaaaaagacttgaggctgggcgtggtggcccacgcct
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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