Basic Information
VIS ID
TVIS30010357
Fusion event
HIV-USP8 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
chr15
Cytoband
q21.2
Reference genome
GRCh37/hg19
Start
50731739/50439542 (Hg38)
End
50731739/50439542 (Hg38)
Orient
-
Location type
Intronic
Target gene
USP8
miRNAs that regulate target gene
hsa-mir-374a-5p ; hsa-mir-125b-5p ; hsa-mir-183-5p ; hsa-mir-16-5p ; hsa-mir-155-5p ; hsa-mir-466 ; hsa-mir-95-5p ; hsa-mir-4789-3p ; hsa-mir-4643 ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-15a-3p ; hsa-mir-8066 ; hsa-mir-6768-3p ; hsa-mir-4753-5p ; hsa-mir-132-3p ; hsa-mir-212-3p
Nearest miRNA
hsa-mir-10393/Upstream/79132; hsa-mir-11181/Downstream/802648;
Nearest TSS
ENST00000557528/Upstream/499; ENST00000560527/Downstream/18961;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/14913, chr15-CpG: 84/Downstream/246604
Upstream sequence
TAAAAAAAAATTCAGCCAGAAGTCATTGTCTTTTCATAAAACGATACAAAAATAATTCCTTTTTggccgggtgcggtggctcacgcttgtaatcccagca
Downstream sequence
ctttgggaggccaaggtgggcggatcacctaaggtcaggagtttgagacaagcctggctaacatggtgaaaccccatttctactaaaaatacaaaaaatt
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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