Basic Information
VIS ID
TVIS30002481
Fusion event
HIV-ITGAL 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
chr16
Cytoband
p11.2
Reference genome
GRCh37/hg19
Start
30498455/30487134 (Hg38)
End
30498455/30487134 (Hg38)
Orient
-
Location type
Intronic
Target gene
ITGAL
miRNAs that regulate target gene
hsa-mir-6878-3p ; hsa-mir-640 ; hsa-mir-378a-5p ; hsa-mir-4764-3p ; hsa-mir-6821-3p ; hsa-mir-6790-3p ; hsa-mir-3653-5p ; hsa-mir-3189-3p ; hsa-mir-212-5p ; hsa-mir-4667-3p ; hsa-mir-3934-5p ; hsa-mir-764 ; hsa-mir-125a-3p ; hsa-mir-6865-3p
Nearest miRNA
hsa-mir-1225/Upstream/887869; hsa-mir-11401/Downstream/16785;
Nearest TSS
ENST00000527434/Upstream/3243; ENST00000564935/Downstream/1749;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/12734, chr16-CpG: 57/Downstream/37386
Upstream sequence
cgggaggctgaggcaggagaatggcgtgaatcctggaggtggagttcacagtgagccaagattgtgccaccgccctccagcctgggcgacagagtgagac
Downstream sequence
tccgtctcaaaaaaaaaaaaaaaaaaaaaaGAGTTTCTACTATATTGCCTAAGCAGgtcttgaactcctgggctcaagcaatcttcctgcttcagcctca
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate