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Viral Integration Site DataBase
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TVIS30001917
Basic Information
VIS ID
TVIS30001917
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
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr11
Cytoband
q13.2
Reference genome
GRCh37/hg19
Start
66975239/67207768 (Hg38)
End
66975239/67207768 (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/162060; hsa-let-7a-2/Downstream/282477;
Nearest TSS
ENST00000527297/Upstream/166;
ENST00000525379/Downstream/8143;
Nearest CpG islands
None/Target,
chr11-CpG: 30/Upstream/87909
,
chr11-CpG: 17/Downstream/42368
Nearest cancer related gene
KDM2A
(OG, No orient, 0)
Upstream sequence
TGGTGCAGAGGCCCTCCACGGTTAGTGTAATCATTTTCTTCATATTGTCATTGTCACCAAAAGGGTTGTTTTCggctggacgttggtaactgatgcttgt
Downstream sequence
tatcccagcactttgggaggccaagggaggcagatcgcttgagctgaggagtttgagagcagccggggcaacatggtgaaaccacatctctacaaaaagt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Sample Information
×
Sample name
Active CD4+
Sample type
Cell line
Gender
Female
CpG Island Information
×
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