Basic Information
VIS ID
TVIS30007299
Fusion event
HIV-PSMG2 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
12712266/12712267 (Hg38)
End
12712266/12712267 (Hg38)
Orient
-
Location type
Intronic
Target gene
PSMG2
miRNAs that regulate target gene
hsa-mir-100-5p ; hsa-let-7c-5p ; hsa-mir-570-5p ; hsa-mir-595 ; hsa-mir-1225-5p ; hsa-mir-1229-5p ; hsa-mir-548ag ; hsa-mir-548ai ; hsa-mir-548ba ; hsa-mir-19b-2-5p ; hsa-mir-19b-1-5p ; hsa-mir-19a-5p ; hsa-mir-2052 ; hsa-mir-503-3p
Nearest miRNA
hsa-mir-3976/Upstream/1057326; hsa-mir-1-2/Downstream/747680;
Nearest TSS
ENST00000575820/Upstream/9241; ENST00000588824/Downstream/11861;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/9024, chr18-CpG: 56/Downstream/65230
Upstream sequence
aacacattgactcacatgacattttatgttatttcagATCCTTTAAAAAGTTCTAAGGAACACACATGTACCTATTTCAGGATTTTATTACATGGCTAAC
Downstream sequence
ATTCTCCTACCTTTTACTGTTTTTTCTGTTAATCCCAATGAGTGTTGCTGTTCTCTGGAGACAAAGAGGGGAGAATATCAAAAGCCAAAAAGTTCAGTTT
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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