Basic Information
VIS ID
TVIS30013234
Fusion event
HIV-USO1 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
chr4
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
76690730/75769577 (Hg38)
End
76690730/75769577 (Hg38)
Orient
-
Location type
Intronic
Target gene
USO1
miRNAs that regulate target gene
hsa-mir-197-3p ; hsa-mir-335-5p ; hsa-let-7b-5p ; hsa-mir-421
Nearest miRNA
hsa-mir-12113/Upstream/9492649; hsa-mir-1243/Downstream/803991;
Nearest TSS
ENST00000502981/Upstream/44979; ENST00000512893/Downstream/546;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/44304, chr4-CpG: 133/Downstream/170359
Upstream sequence
TTTTTTCCCTCACATTTAGAAAAGAATTTTCTGagggataatgggtttgatcttgactttcagctccattggctgatagtcacttagtggagtactatat
Downstream sequence
ggaaaagtattctgacgctcagccaatgctgtgattaattagctgtgtctggtgtgagtgagagaatgggaagtagTATGTTTGCATCACTAATTTGAGT
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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