Basic Information
VIS ID
TVIS30002322
Fusion event
HIV-VPS13C 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
chr15
Cytoband
q22.2
Reference genome
GRCh37/hg19
Start
62264519/61972320 (Hg38)
End
62264519/61972320 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA15A
Target gene
VPS13C
miRNAs that regulate target gene
hsa-mir-128-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-26b-5p ; hsa-mir-326 ; hsa-mir-378a-3p ; hsa-mir-186-5p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-93-5p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-17-5p
Nearest miRNA
hsa-mir-10393/Upstream/2801058; hsa-mir-11181/Downstream/332338;
Nearest TSS
ENST00000557528/Upstream/10649; ENST00000560813/Downstream/19428;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/742803, chr15-CpG: 83/Downstream/87708
Upstream sequence
TTGGAAATTTAGGTTGTTTACATTTTTCCAAATCATAAACATGATAATGAGCAATATTATTTAGCTTAAAAGTGAAAAGTTTAAAAAATTAAAGTAGGCA
Downstream sequence
TGTCATAAAAATTTTCTGCAGAAAAGTAAGTTCTAATTAAAAGTCTAAGCTCTTCCAGAATAAATTAGATATGCCACAGATCATTCTTACATCAGTTTTT
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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