Basic Information
VIS ID
TVIS30008619
Fusion event
HIV-NFKB1 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
chr4
Cytoband
q24
Reference genome
GRCh37/hg19
Start
103474980/102553823 (Hg38)
End
103474980/102553823 (Hg38)
Orient
+
Location type
Intronic
Target gene
NFKB1
miRNAs that regulate target gene
hsa-mir-9-5p ; hsa-mir-146a-5p ; hsa-mir-146b-5p ; hsa-mir-15a-5p ; hsa-let-7a-5p ; hsa-mir-16-5p ; hsa-mir-21-5p ; hsa-mir-155-5p ; hsa-mir-26b-5p ; hsa-mir-92a-3p ; hsa-mir-508-3p ; hsa-mir-199a-5p ; hsa-mir-139-5p ; hsa-mir-138-5p ; hsa-mir-9-3p ; hsa-mir-339-3p ; hsa-mir-34a-5p
Nearest miRNA
hsa-mir-12113/Upstream/1223409; hsa-mir-1243/Downstream/6934875;
Nearest TSS
ENST00000502981/Upstream/16224; ENST00000510638/Downstream/3282;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/51751, chr4-CpG: 54/Downstream/206856
Nearest cancer related gene
NFKB1(TSG, No orient, 0)
Upstream sequence
GGACTTAACTACCCAGGGCAGGGCCCTCCTTGGATTTACTGAAAATAAACACTTTGGGTACTCAGTCTCAGTTTTAATGACAAAAGTTGAAATCTTTGCC
Downstream sequence
TAACATGAAGGTTTTTCTTTGTCTCTAAATTTTGATTTTCCATGCTATCAGAGGTCCCATTGCAACAGGTAATTTGAGTGTTGATTGTATGTTTTCTCAG
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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