Basic Information
VIS ID
TVIS30016673
Fusion event
HIV-NUP188 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
chr9
Cytoband
q34.11
Reference genome
GRCh37/hg19
Start
131718700/128956421 (Hg38)
End
131718526/128956421 (Hg38)
Orient
-
Location type
Exonic
Target gene
NUP188
miRNAs that regulate target gene
hsa-mir-324-5p ; hsa-mir-93-5p ; hsa-mir-31-5p ; hsa-mir-20a-5p ; hsa-mir-4752 ; hsa-mir-6833-5p ; hsa-mir-7847-3p ; hsa-mir-1183
Nearest miRNA
hsa-let-7a-1/Upstream/563707; hsa-mir-12126/Downstream/913184;
Nearest TSS
ENST00000422679/Upstream/7462; ENST00000465344/Downstream/27093;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/8136, chr9-CpG: 32/Downstream/71448
Upstream sequence
AAGAAATGATTCACTGTTCTTTTTGTAGTCCAAGTTCAGCTGAAAAAGTGAAAGCTAATAAAGATGTAGCTTCACCATTGAAGGAACTGGGTTTAAGAAT
Downstream sequence
CAGCAAGTTTTTGGTGAGTAAAAATTAGCACTCGCTCAATTTATTACTTGCAGTGTGGATGTGCGTGGTTATATTGCTAGTGATAGTGAAAATTCAGTTT
Target sequence
AAGGGCAGAAAATAGTCTGTAGGaaaaatattttaaaatatttttattttaaaCTCAGTGGGCTATTGAGAATGAAGAAATGATTCACTGTTCTTTTTGTAGTCCAAGTTCAGCTGAAAAAGTGAAAGCTAATAAAGATGTAGCTTCACCATTGAAGGAACTGGGTTTAAGAAT
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