Basic Information
VIS ID
TVIS30005939
Fusion event
HIV-SLC36A4 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
q21
Reference genome
GRCh37/hg19
Start
92914157/93180991 (Hg38)
End
92914157/93180991 (Hg38)
Orient
+
Location type
Intronic
Target gene
SLC36A4
miRNAs that regulate target gene
hsa-mir-7158-3p ; hsa-mir-203b-3p ; hsa-mir-3613-3p ; hsa-mir-381-3p ; hsa-mir-300 ; hsa-mir-548p ; hsa-mir-487b-5p ; hsa-mir-487a-5p
Nearest miRNA
hsa-mir-10392/Upstream/2311789; hsa-let-7a-2/Downstream/552683;
Nearest TSS
ENST00000527297/Upstream/13461; ENST00000531846/Downstream/1903;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/210723, chr11-CpG: 61/Downstream/16603
Upstream sequence
ATATCCACAAATGAGTATCCAGGAGAGCTACTGAAATGTCAATATATTTTATTTCTCTTTTCAAGAGTTTTAAAACATTTTATTATAGCATATATTCTCC
Downstream sequence
TACTCAGTATGTCAGGAACTCAGAGCAGTTCATGCCAAATCTAACTTCCTGAAAATCTCCAGAAAGGCCACACTTAACTATAAACTACTCTACTAACACT
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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