Basic Information
VIS ID
TVIS30010338
Fusion event
HIV-VRK1 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
chr14
Cytoband
q32.2
Reference genome
GRCh37/hg19
Start
97342775/96876438 (Hg38)
End
97342775/96876438 (Hg38)
Orient
-
Location type
Intronic
Target gene
VRK1
miRNAs that regulate target gene
hsa-mir-24-3p ; hsa-mir-4693-3p ; hsa-mir-4694-3p ; hsa-mir-3662
Nearest miRNA
hsa-mir-1260a/Upstream/1738452; hsa-mir-1185-1/Downstream/3232981;
Nearest TSS
ENST00000550708/Upstream/409; ENST00000555402/Downstream/952;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/78536, chr14-CpG: 54/Downstream/156830
Upstream sequence
TTGCAGATTTGGAACCCGAGACACTGAATGATTAAATGGCAGAGCTgccaggcgtggtgactgatgtgtgcctgtagtctcagctactcaggaggctgag
Downstream sequence
gcaggaggatcacttgagcccaggagtttgagtccagtctgggcaacatagaaaccccatctctaaaataaataaaataaaTGACTGAGCTGTTgtgaaa
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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