Basic Information
VIS ID
TVIS30001575
Fusion event
HIV-PKN2 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
chr1
Cytoband
p22.2
Reference genome
GRCh37/hg19
Start
89169442/88703759 (Hg38)
End
89169442/88703759 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1D
Target gene
PKN2
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-573 ; hsa-mir-3616-5p ; hsa-mir-4795-5p ; hsa-mir-5692a ; hsa-mir-4672 ; hsa-let-7c-3p ; hsa-mir-7109-3p ; hsa-mir-202-5p ; hsa-mir-337-3p ; hsa-mir-4789-5p ; hsa-mir-4264 ; hsa-mir-4797-3p ; hsa-mir-26a-2-3p ; hsa-mir-26a-1-3p ; hsa-mir-1284 ; hsa-mir-16-1-3p ; hsa-mir-6768-5p ; hsa-mir-5582-3p ; hsa-mir-548x-3p ; hsa-mir-548j-3p ; hsa-mir-548aq-3p ; hsa-mir-548am-3p ; hsa-mir-548aj-3p ; hsa-mir-548ah-3p ; hsa-mir-548ae-3p
Nearest miRNA
hsa-mir-101-1/Upstream/2346072; hsa-mir-11399/Downstream/5143073;
Nearest TSS
ENST00000473358/Upstream/18555; ENST00000436111/Downstream/67696;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/18724, chr1-CpG: 44/Downstream/187521
Upstream sequence
GAATGACATTTTACTATAGAGTTCTAGGAACAACATAATGTGGTAAAAAGCAAAGGCTACTTAGTCTATAGTTCCATGAAGTATTGAGATGGGAATATat
Downstream sequence
cagtttagcttaatctcattttacaggttagaaaaatgagacccagagaggtttaagtgatttactatcattaagtagaggaattgattctagaaccaag
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate