Basic Information
VIS ID
TVIS30001948
Fusion event
HIV-CASP4 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
q22.3
Reference genome
GRCh37/hg19
Start
104827611/104956884 (Hg38)
End
104827611/104956884 (Hg38)
Orient
+
Location type
Intronic
Target gene
CASP4
miRNAs that regulate target gene
hsa-mir-26b-5p
Nearest miRNA
hsa-mir-10392/Upstream/1106904; hsa-let-7a-2/Downstream/6390873;
Nearest TSS
ENST00000527297/Upstream/186; ENST00000527177/Downstream/11663;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/792554, chr11-CpG: 31/Downstream/653515
Upstream sequence
GTGTGGGATATCCAAACTACCTGAGTTCTGGGCTTCTGTTTTATTTATTTGTGTGCTCAGTAAACTAATATAGTGTTGACTGAATAAATGATATGTGAAG
Downstream sequence
AAATATAATAAGCAATAAAATTGAAGAGTTTTTAACAAAaaaagtcacatatgacaaacacacagctaacatcatactcaatggtgaaaagttgaaaacc
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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