Basic Information
VIS ID
TVIS30000730
Fusion event
HIV-KCNMA1 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
2016
PubMed ID
26912621
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr10
Cytoband
q22.3
Reference genome
GRCh37/hg19
Start
79140546/77380788 (Hg38)
End
79140546/77380788 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA10D
Target gene
KCNMA1
miRNAs that regulate target gene
hsa-mir-211-5p ; hsa-mir-218-5p ; hsa-mir-17-5p
Nearest miRNA
hsa-mir-1265/Upstream/1828235; hsa-mir-107/Downstream/8883906;
Nearest TSS
ENST00000439456/Upstream/26384; ENST00000600739/Downstream/23125;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/1268241, chr10-CpG: 220/Downstream/255549
Upstream sequence
aggagctcagatgaatGATCACGCCTGACTTCTCAGCCTTGCTTCTGCCATCCCTTCCCCTGAAAAATCTGCTCCTCTCTACTTAACCTAGTAGAACCCT
Downstream sequence
CATGAAAGCTGTTGTCCCTGTTGAAGGAATGATGCCCCAAGCATCCAGCGTGTCTGCTGTTTACTTCATGCACCTTAGTGGATGTGGTGAAATGAAATGA
Reference
Sunshine, S., et al. HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay. J Virol,2016, 90(9): 4511-4519.
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