Basic Information
VIS ID
TVIS30005897
Fusion event
HIV-PDE2A 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
q13.4
Reference genome
GRCh37/hg19
Start
72331187/72620143 (Hg38)
End
72331187/72620143 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA11H
Target gene
PDE2A
miRNAs that regulate target gene
hsa-mir-192-5p ; hsa-mir-335-5p ; hsa-let-7d-3p ; hsa-mir-3619-3p ; hsa-mir-4690-3p ; hsa-mir-5685
Nearest miRNA
hsa-mir-10392/Upstream/5013; hsa-let-7a-2/Downstream/163387;
Nearest TSS
ENST00000527297/Upstream/23517; ENST00000540912/Downstream/15987;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/29441, chr11-CpG: 81/Downstream/22374
Upstream sequence
gagagtgggctcagtttcagcaccaccccacctctgctggagctcctgtgcaaggtatagcctgcacGGTTAAGAGACTTTGGCCTTGCAGGTGACCAAG
Downstream sequence
AAAGGGCAGCTTCCTTTCTTCCTGCCCCACCTTCAGGTGTGCAGCCTGGAACTAGAGGGTCTCTGATTATAGGACTGGGGTAGACACATTCCAGATGAGA
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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