Basic Information
VIS ID
TVIS30000822
Fusion event
HIV-CNKSR2 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
chrX
Cytoband
p22.12
Reference genome
GRCh37/hg19
Start
21407472/21389354 (Hg38)
End
21407472/21389354 (Hg38)
Orient
-
Location type
Intronic
Target gene
CNKSR2
miRNAs that regulate target gene
hsa-mir-758-3p ; hsa-mir-6808-3p ; hsa-mir-4460 ; hsa-mir-7973 ; hsa-mir-5681b ; hsa-mir-6847-3p ; hsa-mir-140-5p ; hsa-mir-6718-5p ; hsa-mir-203b-5p ; hsa-mir-4662a-3p ; hsa-let-7a-3p ; hsa-let-7b-3p ; hsa-let-7f-1-3p ; hsa-mir-2681-5p ; hsa-mir-300 ; hsa-mir-381-3p ; hsa-mir-4666a-3p ; hsa-mir-5580-3p ; hsa-mir-8063 ; hsa-mir-98-3p
Nearest miRNA
hsa-mir-23c/Upstream/1372167; hsa-let-7f-2/Downstream/7106201;
Nearest TSS
ENST00000429181/Upstream/14521; ENST00000480138/Downstream/33941;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/14064, chrX-CpG: 270/Downstream/266546
Upstream sequence
gtacgttaggaaaaataatgaaatccaaataaagtgtggagtttagtttattattagcaatataacaaggttggttccttaatgtagtgaatgtacatag
Downstream sequence
taatgtgagatattaataataggagaatatgggtgaagagtatacaggaactctttatactattttttgcaacttttctgtagatgtaaaactattctga
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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