Basic Information
VIS ID
TVIS30008458
Fusion event
HIV-HPS3 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
q24
Reference genome
GRCh37/hg19
Start
148854604/149136817 (Hg38)
End
148854604/149136817 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA3D
Target gene
HPS3
miRNAs that regulate target gene
hsa-mir-636 ; hsa-mir-574-5p ; hsa-mir-6818-5p ; hsa-mir-6867-5p ; hsa-mir-3689f ; hsa-mir-3689e ; hsa-mir-3689b-5p ; hsa-mir-3689a-5p ; hsa-mir-5011-5p ; hsa-mir-410-3p ; hsa-mir-154-3p ; hsa-mir-487a-3p ; hsa-mir-511-3p
Nearest miRNA
hsa-let-7g/Upstream/14698911; hsa-mir-1224/Downstream/2429059;
Nearest TSS
ENST00000440867/Upstream/7126; ENST00000478525/Downstream/23229;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/6636, chr3-CpG: 130/Downstream/520105
Upstream sequence
acatttagcaagtgctggatcatcattTAAAGACCAGGTCATTAATCTGAAAGCACACAATACAACATGGACACTATCTACAATTTGCATACTATAAACA
Downstream sequence
TTAGTTAATATATGAATTTTATAGATGAAATGGGCATGTATTTATAGGTATATGAATAAAAAGGTTTTATTGTAATTAAATATTCTTAGTTTTAAAATTT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate