Basic Information
VIS ID
TVIS30007049
Fusion event
HIV-NF1 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
q11.2
Reference genome
GRCh37/hg19
Start
29598432/31271414 (Hg38)
End
29598432/31271414 (Hg38)
Orient
+
Location type
Intronic
Target gene
NF1
miRNAs that regulate target gene
hsa-mir-10b-5p ; hsa-mir-370-3p ; hsa-mir-20a-3p ; hsa-mir-193b-3p ; hsa-let-7e-5p ; hsa-mir-9-5p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-193a-3p ; hsa-mir-374a-5p ; hsa-mir-27b-3p ; hsa-mir-27a-3p ; hsa-mir-107 ; hsa-mir-514a-5p
Nearest miRNA
hsa-mir-1180/Upstream/176989; hsa-mir-10226/Downstream/263469;
Nearest TSS
ENST00000595228/Upstream/38384; ENST00000581113/Downstream/2208;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/175954, chr17-CpG: 29/Downstream/73903
Nearest cancer related gene
NF1(TSG, No orient, 0)
Upstream sequence
AAGGTTAGCAGAATTGGCACCTTTTCTTAGCGAAATGACATATTACTATTAACACATTCATGAAATATGTTAATACAGATGAATGTGTTATTTTGTAGAG
Downstream sequence
CGCTTTAGTTTATCAGATTAGCATTTTTTGTCTGtttaataaaaaataaaatatagaccgggcatggtggctcacacctgtaatctcagcactttgggaa
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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