Basic Information
VIS ID
TVIS30009897
Fusion event
HIV-CA5B 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
p22.2
Reference genome
GRCh37/hg19
Start
15797995/15779872 (Hg38)
End
15797995/15779872 (Hg38)
Orient
-
Location type
Intronic
Target gene
CA5B
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-142-3p ; hsa-mir-124-3p ; hsa-mir-92a-3p ; hsa-let-7e-5p ; hsa-mir-4662a-5p ; hsa-mir-7703 ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-542-3p ; hsa-mir-4252 ; hsa-mir-2277-3p ; hsa-mir-4793-3p ; hsa-mir-766-3p ; hsa-mir-6849-3p ; hsa-mir-1273g-3p ; hsa-mir-3940-3p ; hsa-mir-508-5p ; hsa-mir-1292-3p
Nearest miRNA
hsa-mir-3690-1/Upstream/2189526; hsa-let-7f-2/Downstream/847140;
Nearest TSS
ENST00000429181/Upstream/5603; ENST00000380308/Downstream/7717;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/41359, chrX-CpG: 52/Downstream/10195
Upstream sequence
TATACATTTAGTCTGTTTCTATTCTTTGGATTAAAAAATTGACACATTTCCTTGACTTATATTCCTTCTAGAAAAACAAATGGACATAACATTGAAAAAC
Downstream sequence
AAATAAAGCAAATACATCAGAGGGTCAGTGGCCCATGTGAGGACTTTGTAAATACGATTTCAACaaaattttaaaatttatttttcaattatataattta
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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