Basic Information
VIS ID
TVIS30008762
Fusion event
HIV-ITGA1 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
chr5
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
52103387/52807553 (Hg38)
End
52103387/52807553 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA5H
Target gene
ITGA1
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-1-3p ; hsa-mir-3924 ; hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-223-5p ; hsa-mir-511-3p ; hsa-mir-5011-5p ; hsa-mir-297 ; hsa-mir-6790-5p ; hsa-mir-4658 ; hsa-mir-567 ; hsa-mir-3659 ; hsa-mir-574-5p ; hsa-mir-4729 ; hsa-mir-7159-5p ; hsa-mir-8064 ; hsa-mir-3065-5p ; hsa-mir-8485 ; hsa-mir-7-2-3p ; hsa-mir-7-1-3p ; hsa-mir-5589-3p ; hsa-mir-576-5p ; hsa-mir-4263 ; hsa-mir-548s ; hsa-mir-4753-3p ; hsa-mir-4799-5p ; hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-3926 ; hsa-mir-3922-3p ; hsa-mir-3176 ; hsa-mir-3190-5p ; hsa-mir-130b-5p ; hsa-mir-1236-3p ; hsa-mir-6769b-3p ; hsa-mir-4723-3p ; hsa-mir-3183 ; hsa-mir-3126-3p
Nearest miRNA
hsa-mir-10397/Upstream/14249992; hsa-mir-103a-1/Downstream/1143951;
Nearest TSS
ENST00000502646/Upstream/19527; ENST00000514262/Downstream/56420;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/7362, chr5-CpG: 63/Downstream/181332
Upstream sequence
aataacagttagtgggtgTGATGAGGTGCTCCCTCAGCTATCACCCTAAAAAATCTAAGAATGCCAGTTCTTCTCAGCTTTCAGTTTGGAGTAGGCAAAC
Downstream sequence
ATGTATCtaaaaataaaaataaattatttGATGACACTAAATTTTATATAATCAGCCAAAGTTTATGCAATCATTTTTAATGTTTTTATTCTATTATTTT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate