Basic Information
VIS ID
TVIS30006937
Fusion event
HIV-SNAI3-AS1 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
chr16
Cytoband
q24.2
Reference genome
GRCh37/hg19
Start
88741210/88674802 (Hg38)
End
88741210/88674802 (Hg38)
Orient
+
Location type
ncRNA_exonic
Target gene
SNAI3-AS1
Nearest miRNA
hsa-mir-11401/Upstream/205771; hsa-mir-4722/Downstream/41476;
Nearest TSS
ENST00000527434/Upstream/1406; ENST00000567997/Downstream/10331;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/10800, chr16-CpG: 21/Downstream/6537
Upstream sequence
CTCCAGGTTAACCTGGGGATGGTCAGGCAGAACAAGGAGGAGAGGCCAGCAGTGAAGGGCAGGGCTGGTGGGCAGTGGCTGGGGGTGTCCTGGGTGGGGC
Downstream sequence
TGGCCACCCTCGCTGCCTCTGACTTGGGCCAGACCTGCGTTAAGTGGAGTGGCTCCTCCATTCTTTACACCCCAGGCCCCTGGCAGGTGCCCTGCCTTTC
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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