Basic Information
VIS ID
TVIS30010831
Fusion event
HIV-USP13 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
chr3
Cytoband
q26.33
Reference genome
GRCh37/hg19
Start
179429285/179711497 (Hg38)
End
179429285/179711497 (Hg38)
Orient
+
Location type
Intronic
Target gene
USP13
miRNAs that regulate target gene
hsa-mir-92a-3p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-130a-3p ; hsa-mir-301a-3p ; hsa-mir-130b-3p ; hsa-mir-1468-3p ; hsa-mir-454-3p ; hsa-mir-301b-3p ; hsa-mir-548f-5p ; hsa-mir-548g-5p ; hsa-mir-3163 ; hsa-mir-548x-5p ; hsa-mir-4295 ; hsa-mir-3666 ; hsa-mir-548aj-5p ; hsa-mir-4671-3p ; hsa-mir-548aw ; hsa-mir-6080 ; hsa-mir-6820-3p ; hsa-mir-3164 ; hsa-mir-3118 ; hsa-mir-134-5p ; hsa-mir-1305 ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-4778-3p ; hsa-mir-539-3p
Nearest miRNA
hsa-let-7g/Upstream/3196346; hsa-mir-1224/Downstream/4175303;
Nearest TSS
ENST00000440867/Upstream/57804; ENST00000497155/Downstream/10067;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/57736, chr3-CpG: 96/Downstream/325235
Upstream sequence
agatggggtttcaccatgttggtcaggttggccttgaactcctgacctcaggtgatccacccacctcggcctctcaaagtgttgggattacaggcgagag
Downstream sequence
ccaccatgcccagccaaatttttttttaaaatatctttattttataagcttttttccatttttattttgctttttaaacgtttttattaaaaactaagac
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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