Basic Information
VIS ID
TVIS30002799
Fusion event
HIV-PSMD12 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
chr17
Cytoband
q24.2
Reference genome
GRCh37/hg19
Start
65335529/67339413 (Hg38)
End
65335529/67339413 (Hg38)
Orient
-
Location type
UTR3
Target gene
PSMD12
miRNAs that regulate target gene
hsa-mir-142-3p ; hsa-mir-132-3p ; hsa-mir-16-5p ; hsa-mir-3117-5p ; hsa-mir-4537 ; hsa-mir-6499-3p
Nearest miRNA
hsa-mir-10226/Upstream/552245; hsa-mir-1250/Downstream/132076;
Nearest TSS
ENST00000595228/Upstream/93424; ENST00000584471/Downstream/3071;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/93031, chr17-CpG: 47/Downstream/26814
Upstream sequence
ttggccaggctagtctcgaaatcctgaccttagatgatccacccgccttggcctcccaaagtgctgggatccactgcacccggccTTTTTTGGTTAGTTT
Downstream sequence
TAAAAAGATAAGTGATAGCAGATGTTGATGTTATTAGTGTGACCAATGCATTGAATTTCCAAAGAATAAAATCAGATTACTTCAGTACTGTATGTCATTA
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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