Basic Information
VIS ID
TVIS30010028
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
154483122/155254852 (Hg38)
End
154483122/155254852 (Hg38)
Orient
-
Location type
Intergenic
Fragile sites / regions
FRAXE ; FRAXF
Nearest miRNA
hsa-let-7f-2/Upstream/367394; hsa-mir-1184-2/Downstream/128248;
Nearest TSS
ENST00000429181/Upstream/27708; ENST00000354514/Downstream/9737;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/38360, chrX-CpG: 52/Downstream/9166
Nearby gene
RAB39B(No orient, 4397)
Upstream sequence
TAGTTTTTGAGTGGGGAAGGCCTATCTCAACCTAACATCATTGCCAAAAAACATTAAGACAACATACTGTACAAGAAAGATAACATAAGTTACATGGCAC
Downstream sequence
AAAAATCAAAAGATACAAAATGTTATCCAATGGAAATTAAGTCTTCCTCACAGCTTGTCTTCCAGGCATCAGTTCCCCAATTCTGAGACAAAGACTGTTT
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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