Basic Information
VIS ID
TVIS30006024
Fusion event
HIV-NTM 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
chr11
Cytoband
q25
Reference genome
GRCh37/hg19
Start
131486318/131616424 (Hg38)
End
131486318/131616424 (Hg38)
Orient
+
Location type
Intronic
Target gene
NTM
miRNAs that regulate target gene
hsa-mir-182-5p ; hsa-mir-340-5p ; hsa-mir-501-5p ; hsa-mir-500b-5p ; hsa-mir-362-5p
Nearest miRNA
hsa-let-7a-2/Upstream/949621; hsa-mir-4697/Downstream/2282080;
Nearest TSS
ENST00000527297/Upstream/34413; ENST00000470371/Downstream/47159;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/699685, chr11-CpG: 16/Downstream/74038
Upstream sequence
TTGGAGGACAGAGGAAAAAGAAACATTTATCAAACTGGAGAGTGGGAAATGACCGCGGACGGAGGCAAGGGAGAGAGCCAGGCCTCCACAAAGCAGAGAG
Downstream sequence
GAAGCAATTTGACAACGAGGTGAAAATTGCCACTGCTGATTCTCCTGACACTCTGAGCTTTACCCATGGGCCCAGGGAAATCTGTCACTGGCTCAGGGAA
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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