Basic Information
VIS ID
TVIS30000734
Fusion event
HIV-KDM2A 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
chr11
Cytoband
q13.2
Reference genome
GRCh37/hg19
Start
66917282/67149811 (Hg38)
End
66917282/67149811 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA11H
Target gene
KDM2A
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-16-5p ; hsa-mir-1226-3p ; hsa-mir-296-3p ; hsa-mir-769-5p ; hsa-mir-92b-3p ; hsa-mir-29b-3p ; hsa-mir-137 ; hsa-let-7i-3p ; hsa-mir-106b-3p ; hsa-mir-1273h-5p ; hsa-mir-1294 ; hsa-mir-1539 ; hsa-mir-185-5p ; hsa-mir-30b-3p ; hsa-mir-30c-1-3p ; hsa-mir-30c-2-3p ; hsa-mir-3122 ; hsa-mir-3134 ; hsa-mir-3150b-3p ; hsa-mir-3654 ; hsa-mir-3689a-3p ; hsa-mir-3689b-3p ; hsa-mir-3689c ; hsa-mir-377-5p ; hsa-mir-3913-5p ; hsa-mir-3939 ; hsa-mir-4306 ; hsa-mir-4464 ; hsa-mir-4477b ; hsa-mir-450a-1-3p ; hsa-mir-4534 ; hsa-mir-4644 ; hsa-mir-4683 ; hsa-mir-4693-3p ; hsa-mir-4695-3p ; hsa-mir-4748 ; hsa-mir-4784 ; hsa-mir-4802-5p ; hsa-mir-5192 ; hsa-mir-574-5p ; hsa-mir-6086 ; hsa-mir-6513-5p ; hsa-mir-655-5p ; hsa-mir-6731-5p ; hsa-mir-6740-5p ; hsa-mir-6746-5p ; hsa-mir-6779-5p ; hsa-mir-6780a-5p ; hsa-mir-6788-5p ; hsa-mir-6878-5p ; hsa-mir-6894-5p ; hsa-mir-7154-3p ; hsa-mir-765 ; hsa-mir-766-5p ; hsa-mir-8082 ; hsa-mir-8085 ; hsa-mir-887-5p
Nearest miRNA
hsa-mir-10392/Upstream/104103; hsa-let-7a-2/Downstream/340434;
Nearest TSS
ENST00000527297/Upstream/28542; ENST00000528380/Downstream/57757;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/29952, chr11-CpG: 17/Downstream/100325
Nearest cancer related gene
KDM2A(OG, No orient, 0)
Upstream sequence
GTATTAGAATCtttttttttttttttttgacagtgttttctcttttttgcctaggctggagtgcgatgatacgatctcggctcactgcaacctcggcctc
Downstream sequence
ccaggttcaagtgattctcctgcctcagccacccaagtagctgggattacaggcatgcgccaccagtcccagctaattttgtatttttagtagaagagcg
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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