Basic Information
VIS ID
TVIS30002619
Fusion event
HIV-NUP88 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
p13.2
Reference genome
GRCh37/hg19
Start
5294281/5390961 (Hg38)
End
5294281/5390961 (Hg38)
Orient
-
Location type
Intronic
Target gene
NUP88
Nearest miRNA
hsa-mir-1253/Upstream/420811; hsa-mir-10226/Downstream/1264479;
Nearest TSS
ENST00000595228/Upstream/2111; ENST00000575711/Downstream/4018;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/108114, chr17-CpG: 95/Downstream/28226
Upstream sequence
tttttttgttttttgtagagatgggggtctcactgttttgcccaggctgatctcgaactctgggcctcccaaagcattgggattacaggcatgaaccacc
Downstream sequence
actgcacccagccTGAGTTCAGCTTTATTCCAGTTTACATAGTCTACAGTGTCCCTCAGGCTGGCAGAGATGGAGAAATTAAAGAGTATgagtatggact
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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