Basic Information
VIS ID
TVIS30007606
Fusion event
HIV-NCOA1 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
chr2
Cytoband
p23.3
Reference genome
GRCh37/hg19
Start
24895740/24672871 (Hg38)
End
24895740/24672871 (Hg38)
Orient
-
Location type
Intronic
Target gene
NCOA1
miRNAs that regulate target gene
hsa-mir-22-3p ; hsa-let-7d-5p ; hsa-mir-34a-5p ; hsa-mir-548e-5p ; hsa-mir-105-5p ; hsa-mir-129-5p ; hsa-mir-3158-5p ; hsa-mir-3185 ; hsa-mir-4461 ; hsa-mir-519d-5p ; hsa-mir-604 ; hsa-mir-647 ; hsa-mir-6762-3p ; hsa-mir-6772-3p ; hsa-mir-6885-3p ; hsa-mir-7853-5p ; hsa-mir-889-5p
Nearest miRNA
hsa-mir-3125/Upstream/5324366; hsa-mir-10b/Downstream/655769;
Nearest TSS
ENST00000437798/Upstream/88330; ENST00000486198/Downstream/34856;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/180572, chr2-CpG: 68/Downstream/120139
Upstream sequence
TAGTCTGACAGATCAGAAACTTTTATTATTTAAATATGATTCTGCTTTAAGATGATGGGATATGCAACATCACCTCACAAAAGAACTCCCAATTACTTAG
Downstream sequence
CAGTTTCAGTTTTATCAATCAGAGCATCATGGCACGAATGTGAAATGTTAGTGAGTTCATGCAGGCTCTCAAAAGGAAAAATCATATTTTCATTCTCTCT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate