Basic Information
VIS ID
TVIS30001708
Fusion event
HIV-KCNK2 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
chr1
Cytoband
q41
Reference genome
GRCh37/hg19
Start
215270930/215097587 (Hg38)
End
215270930/215097587 (Hg38)
Orient
-
Location type
Intronic
Target gene
KCNK2
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-4753-3p ; hsa-mir-6809-3p ; hsa-mir-4284 ; hsa-mir-3682-3p ; hsa-mir-5571-5p ; hsa-mir-24-3p ; hsa-mir-4729 ; hsa-mir-4760-5p ; hsa-mir-5696 ; hsa-mir-8061
Nearest miRNA
hsa-mir-101-1/Upstream/3019902; hsa-mir-1182/Downstream/5020266;
Nearest TSS
ENST00000473358/Upstream/14070; ENST00000448333/Downstream/296831;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/14294, chr1-CpG: 76/Downstream/469577
Upstream sequence
TGTTAATAAAGAAAAATTTTTTTTTGGCAGCATTTGAAATTACATAATTTTCTTGTCCTCTGCTACCTTTGTGAGTTCATTCCTTATGGTTTCATGCAGT
Downstream sequence
TGCTTTAATTTTGACAATTTTCTCTAATGGTTAGTAGCAGATAAAGTGTAATGGTTACTTTCTAGAAGGTGTCAATTCCTTTATGATATTTGGTTGGGAT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate