Basic Information
VIS ID
TVIS30011143
Fusion event
HIV-chrX 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
chrX
Cytoband
q28
Reference genome
GRCh37/hg19
Start
148148608/149067078 (Hg38)
End
148148608/149067078 (Hg38)
Orient
-
Location type
Intergenic
Fragile sites / regions
FRAXE ; FRAXF
Nearest miRNA
hsa-let-7f-2/Upstream/1782350; hsa-mir-105-1/Downstream/1160926;
Nearest TSS
ENST00000429181/Upstream/347987; ENST00000448332/Downstream/431188;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/565315, chrX-CpG: 17/Downstream/403942
Nearby gene
AFF2(No orient, 66415)
Upstream sequence
gcagaatcaggatttgaaactactcaattaattcctgagcctcttccaccatagctatTATAGTTTACTGCCTACCTGCAAAGTAAAGATACTAAATAGG
Downstream sequence
TCacaattacacagcacctactatgtgttgctagtcacaatcttacatatattaactcgttcaatcttcatggcaatcctatgaggtcagttttactttt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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