Basic Information
VIS ID
TVIS30004878
Fusion event
HIV-PIGX 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
chr3
Cytoband
q29
Reference genome
GRCh37/hg19
Start
196447829/196720958 (Hg38)
End
196447829/196720958 (Hg38)
Orient
-
Location type
Intronic
Target gene
PIGX
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-21-5p ; hsa-mir-122-5p ; hsa-mir-129-5p ; hsa-mir-1304-3p ; hsa-mir-3135b ; hsa-mir-3652 ; hsa-mir-3664-5p ; hsa-mir-3672 ; hsa-mir-4430 ; hsa-mir-4524a-3p ; hsa-mir-4639-3p ; hsa-mir-4797-5p ; hsa-mir-5007-5p ; hsa-mir-504-3p ; hsa-mir-5698 ; hsa-mir-6794-3p ; hsa-mir-6864-3p ; hsa-mir-8055
Nearest miRNA
hsa-let-7g/Upstream/838563; hsa-mir-4797/Downstream/572920;
Nearest TSS
ENST00000440867/Upstream/8236; ENST00000481344/Downstream/18899;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/8095, chr3-CpG: 79/Downstream/18756
Upstream sequence
ttatttttgaaggattttcctcctggatataaaattctagatcgacagcctcttttcttttagtaatttaaataagttgctccattatcttctagcttat
Downstream sequence
tcttatctttgttaatctctccatcattattgatagcttttaagattgttttccattgactggataataatgtgccttgatgtgattttctttgtattta
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate