Basic Information
VIS ID
TVIS30012882
Fusion event
HIV-STAU1 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
chr20
Cytoband
q13.13
Reference genome
GRCh37/hg19
Start
47787548/49171011 (Hg38)
End
47787548/49171011 (Hg38)
Orient
+
Location type
Intronic
Target gene
STAU1
miRNAs that regulate target gene
hsa-mir-132-3p ; hsa-mir-27a-3p ; hsa-mir-16-5p ; hsa-mir-877-5p ; hsa-mir-30e-5p ; hsa-mir-5011-5p ; hsa-mir-218-5p ; hsa-mir-30e-3p ; hsa-mir-30d-3p ; hsa-mir-30a-3p ; hsa-mir-6513-5p ; hsa-mir-5089-5p ; hsa-mir-6728-5p ; hsa-mir-769-3p ; hsa-mir-450b-3p ; hsa-mir-222-5p ; hsa-mir-190a-3p ; hsa-mir-374b-5p ; hsa-mir-374a-5p ; hsa-mir-3147 ; hsa-mir-4425 ; hsa-mir-1290 ; hsa-mir-16-1-3p ; hsa-mir-4781-3p ; hsa-mir-218-2-3p ; hsa-mir-30d-5p ; hsa-mir-30c-5p ; hsa-mir-30b-5p ; hsa-mir-30a-5p ; hsa-mir-9-5p
Nearest miRNA
hsa-mir-103a-2/Upstream/2003953; hsa-mir-1-1/Downstream/692848;
Nearest TSS
ENST00000382410/Upstream/16943; ENST00000462328/Downstream/3252;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/124099, chr20-CpG: 83/Downstream/16805
Upstream sequence
GATATACAGATACAAAGGAGCACTCCTGTGCCTCGCTGTTATAAAGCAATAGCAATTCTAAAATATATTCACTCAATAGTCTACAAAAACTTATTAAGCA
Downstream sequence
TCTATTACATGTGAACCCATAAATGGCAGATTGCACATTCTTAAATGCTGGAAAGGATCTGTGTGTTAAACTCTTCCTCAAAGACACAAGACGACATCTT
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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