Basic Information
VIS ID
TVIS30015317
Fusion event
HIV-NDE1 integration
Validated
Yes
Detection method
LM PCR
Data source
Curated
Sample type
PBMC
Disease
HIV-infected disease (HID)
Quality evaluation
Good
Reported year
2014
PubMed ID
24968937
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr16
Cytoband
p13.11
Reference genome
GRCh37/hg19
Start
15738248/15644391 (Hg38)
End
15738164/15644391 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA16A
Target gene
NDE1
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-30a-5p ; hsa-mir-877-5p ; hsa-mir-744-5p ; hsa-mir-92b-5p ; hsa-mir-423-5p ; hsa-mir-296-3p ; hsa-mir-769-5p ; hsa-mir-652-3p ; hsa-mir-423-3p ; hsa-mir-151a-3p ; hsa-mir-378a-3p ; hsa-mir-181b-5p ; hsa-mir-100-5p ; hsa-mir-99a-5p ; hsa-mir-25-3p ; hsa-mir-3196
Nearest miRNA
hsa-mir-1225/Upstream/1019; hsa-mir-11401/Downstream/655768;
Nearest TSS
ENST00000527434/Upstream/1124; ENST00000570727/Downstream/5836;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/1091, chr16-CpG: 64/Downstream/5511
Upstream sequence
GGTTATTTCAATAGGCAATCCCCATTACGTGGGGATTAACACATCCCTGTAAACATCCCTGTAGACGGGTATTGTGGAGGGCAGGATCAGACATGTAGCT
Downstream sequence
GAAGAATCCTTTGTGCCTGTATTTAATTTTCCAGAAGGCAGATGACAAGCACACATCCTCTCCCTGCGTAGGTATTTATTACTGCTGACTAAATCTTGAC
Target sequence
AATCCCCATTACGTGGGGATTAACACATCCCTGTAAACATCCCTGTAGACGGGTATTGTGGAGGGCAGGATCAGACATGTAGCT
Reference
Maldarelli, F., et al. Specific HIV integration sites are linked to clonal expansion and persistence of infected cells. Science,2014, 345(6193): 179-183.
Curate