Basic Information
VIS ID
TVIS30012388
Fusion event
HIV-NUP85 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
q25.1
Reference genome
GRCh37/hg19
Start
73209269/75213174 (Hg38)
End
73209269/75213174 (Hg38)
Orient
-
Location type
Intronic
Target gene
NUP85
miRNAs that regulate target gene
hsa-mir-324-5p ; hsa-mir-665 ; hsa-mir-7160-5p ; hsa-mir-4722-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-1827 ; hsa-mir-4649-3p ; hsa-mir-4768-3p ; hsa-mir-6767-3p ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-6077 ; hsa-mir-4312 ; hsa-mir-4763-5p ; hsa-mir-6747-3p ; hsa-mir-9500 ; hsa-mir-6822-5p ; hsa-mir-6750-5p ; hsa-mir-5584-5p ; hsa-mir-596
Nearest miRNA
hsa-mir-10226/Upstream/464475; hsa-mir-1250/Downstream/192895;
Nearest TSS
ENST00000595228/Upstream/7454; ENST00000577561/Downstream/2627;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/7147, chr17-CpG: 89/Downstream/47925
Upstream sequence
GTTGCTGCTAAAGATCCAGCCAATGGCCGCCAGTTCAGCAGCCAGGTAAGGGGAGTCACCTTTATTGTTTTAGCACCACTGTGTCCTGTGTCCTGGGCAC
Downstream sequence
CCACCTGGGGTGGCTTTGCAGTTCCTGTTATGGCAGAAGTCTCTTCTTTTCAGGTAGATAGGCAGCTCCTTTGGGTGACAGTGATTGTCTTGCCCCCTTC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate