Basic Information
VIS ID
TVIS30004338
Fusion event
HIV-KDM4A 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
p34.2
Reference genome
GRCh37/hg19
Start
44125832/43660161 (Hg38)
End
44125832/43660161 (Hg38)
Orient
-
Location type
Intronic
Target gene
KDM4A
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-505-3p ; hsa-mir-17-5p ; hsa-let-7b-5p ; hsa-mir-34a-5p ; hsa-mir-137
Nearest miRNA
hsa-mir-12136/Upstream/211550; hsa-mir-101-1/Downstream/178461;
Nearest TSS
ENST00000473358/Upstream/6855; ENST00000472265/Downstream/6124;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/9523, chr1-CpG: 100/Downstream/46836
Upstream sequence
AGGAAGACCGGTTTACATCTGTGTGTACATTACCTTCCTCAGGCTTCCTCAGGCCCAGTGCTCATGGAAGGGACGTTGAGGGACTGACTACGTATTAGAG
Downstream sequence
CCTTGAAGGCCAAGATTATGCCTTGTTCATTTGAAATTCTTGCTGTCACTGGAATAGGGGATTATGTCTTGTAATGTTCATAATGCCTAATAAACCCCTG
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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