Basic Information
VIS ID
TVIS30004148
Fusion event
HIV-KANK1 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
chr9
Cytoband
p24.3
Reference genome
GRCh37/hg19
Start
486716/486716 (Hg38)
End
486716/486716 (Hg38)
Orient
-
Location type
Intronic
Target gene
KANK1
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-335-5p ; hsa-mir-10a-5p ; hsa-mir-100-5p ; hsa-mir-374b-3p ; hsa-mir-4524b-5p ; hsa-mir-4524a-5p ; hsa-mir-633 ; hsa-mir-3622b-5p ; hsa-mir-873-5p ; hsa-mir-3677-5p ; hsa-mir-646 ; hsa-mir-195-5p ; hsa-mir-424-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-497-5p ; hsa-mir-6838-5p ; hsa-mir-503-5p ; hsa-mir-15a-5p
Nearest miRNA
hsa-mir-1302-9/Upstream/456435; hsa-let-7a-1/Downstream/4363581;
Nearest TSS
ENST00000422679/Upstream/15249; ENST00000354485/Downstream/5532;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/16392, chr9-CpG: 215/Downstream/17220
Nearest cancer related gene
KANK1(TSG, No orient, 0)
Upstream sequence
gtgcactgtactgCCTTTTATAAATAAAAATTAATCTAACATAAGCTTTTAATCAGTGTTCCAGTGGTCTTTCAGCTAGAGATACTACCTTTTTCTGAAC
Downstream sequence
TTATATTTCCGTCATTATAAAAAAATAAAAAGCAAAAACCTCAAATATTTTCTGTATTTTAAGACTCTTCAATTATATAAACAATTTTTATCTGATTTCA
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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