Basic Information
VIS ID
TVIS30007090
Fusion event
HIV-chr17 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
q21.1
Reference genome
GRCh37/hg19
Start
38328477/40172224 (Hg38)
End
38328477/40172224 (Hg38)
Orient
+
Location type
Intergenic
Nearest miRNA
hsa-mir-1180/Upstream/10223; hsa-mir-10226/Downstream/21373;
Nearest TSS
ENST00000595228/Upstream/3786; ENST00000538884/Downstream/4786;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/31471, chr17-CpG: 82/Downstream/5382
Nearby gene
CASC3(No orient, 46)
Upstream sequence
GATCAGCATTGTGACTTGGAGATAATAAAATTTAGACTATAAACTTGGCTCCCTTGCCAGTGTTTTGCATGAGTCTTGATTTGGGAGGGAGGGAAGAGGA
Downstream sequence
CTCCCTAATTCCCCCACAGGGTCACGGTCACAACTCAGGTCAGCCCAAGTTGTGAAACAGAAGCCCAGAGAGATGAGGAGCCCCTATGAGGCCATAAATG
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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