Basic Information
VIS ID
TVIS30004218
Fusion event
HIV-NUP188 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
chr9
Cytoband
q34.11
Reference genome
GRCh37/hg19
Start
131720645/128958366 (Hg38)
End
131720645/128958366 (Hg38)
Orient
+
Location type
Intronic
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/565652; hsa-mir-12126/Downstream/911239;
Nearest TSS
ENST00000422679/Upstream/9407; ENST00000465344/Downstream/25148;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/10081, chr9-CpG: 32/Downstream/69503
Upstream sequence
GTGAGAACAAGTTCATGGATATTTTTTCTTTAGGTGTAAGTCCAACAGGATTAATTTGTATTTCTTTATTTCTTTATTCTTCAGTCCCTTTCCAGCAACC
Downstream sequence
TTCTCACTTAGGATCTCGTGTTAAAATGTAATTTGTGACTTCTGAAGAAGTTTCCTATTTTATATTTAGTGAGAATAAGTACATTAGTTACAAGCAATTA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate