Basic Information
VIS ID
TVIS30010046
Fusion event
HIV-NPHP4 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
chr1
Cytoband
p36.31
Reference genome
GRCh37/hg19
Start
5957229/5897169 (Hg38)
End
5957229/5897169 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
NPHP4
Nearest miRNA
hsa-mir-12136/Upstream/34428; hsa-mir-101-1/Downstream/532665;
Nearest TSS
ENST00000473358/Upstream/14320; ENST00000493807/Downstream/8155;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/6200, chr1-CpG: 189/Downstream/94366
Upstream sequence
ttgtcctgtctttgtggagcatgtatatgtagttcatcgcttatcggtagggaaagttcttttttaacaaagaatgtgagctaataaaggcagagcagac
Downstream sequence
caaatgatagaattagacaaattaccatttcaaaaacaccaattaaataactgacgcaagcaaagctcagcccagggtgttaaaacaagaggtggaaggt
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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