Basic Information
VIS ID
TVIS30004658
Fusion event
HIV-SNORD1A 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
q25.1
Reference genome
GRCh37/hg19
Start
74557734/76561652 (Hg38)
End
74557734/76561652 (Hg38)
Orient
+
Location type
ncRNA_exonic
Target gene
SNORD1A
Nearest miRNA
hsa-mir-10226/Upstream/463576; hsa-mir-1250/Downstream/174798;
Nearest TSS
ENST00000595228/Upstream/3969; ENST00000588104/Downstream/8140;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/3373, chr17-CpG: 115/Downstream/23447
Upstream sequence
CTGCTTTGCCGGAAACAAGTGAAATGATTGCTTTCCTGTTTGTAAGATTTGTTTACATCTTTCGTATCCGTAAGAAGTCCCACAAGCCTATGATGGTTAG
Downstream sequence
TTATCCCTGTCTGAAAATCTGGACTGAGGGAAATAATCTATTCTGAGGCTTAAGGGTTTGGCTCCATGGttttttttttgtttttgttttttttcccctt
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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