Basic Information
VIS ID
TVIS30002636
Fusion event
HIV-NDEL1 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
chr17
Cytoband
p13.1
Reference genome
GRCh37/hg19
Start
8357038/8453720 (Hg38)
End
8357038/8453720 (Hg38)
Orient
-
Location type
Intronic
Target gene
NDEL1
miRNAs that regulate target gene
hsa-mir-130b-3p ; hsa-mir-103a-3p ; hsa-mir-93-5p ; hsa-mir-30a-5p ; hsa-mir-19b-3p ; hsa-mir-125a-5p ; hsa-mir-330-5p ; hsa-mir-6765-5p ; hsa-mir-2861 ; hsa-mir-5787 ; hsa-mir-4505 ; hsa-mir-6722-5p ; hsa-mir-765 ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-6087 ; hsa-mir-3197 ; hsa-mir-4784 ; hsa-mir-3150b-3p ; hsa-mir-4524a-3p ; hsa-mir-7162-3p ; hsa-mir-4649-3p ; hsa-mir-30e-5p ; hsa-mir-30d-5p ; hsa-mir-30c-5p ; hsa-mir-30b-5p ; hsa-mir-1203 ; hsa-mir-1910-5p ; hsa-mir-4487 ; hsa-mir-455-3p ; hsa-mir-593-5p ; hsa-mir-6075 ; hsa-mir-6746-3p
Nearest miRNA
hsa-mir-1253/Upstream/266716; hsa-mir-10226/Downstream/3628179;
Nearest TSS
ENST00000595228/Upstream/2939; ENST00000583683/Downstream/9057;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/17078, chr17-CpG: 28/Downstream/23134
Upstream sequence
tggtaaatactatgattctgaatgggaagacttaattttcttacaatatccattctccccaagtcaatctgtaatttcaacttctaataaaaatcctaat
Downstream sequence
aggatttaaaaaattgatatgttgatattaaaattattttggaatagtaaatgtgcaagaacagctgagaaaaatttgaaatgggctaataacaagaggg
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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