Basic Information
VIS ID
TVIS30008028
Fusion event
HIV-SYCP2 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
chr20
Cytoband
q13.33
Reference genome
GRCh37/hg19
Start
58484850/59909795 (Hg38)
End
58484850/59909795 (Hg38)
Orient
-
Location type
Intronic
Target gene
SYCP2
Nearest miRNA
hsa-mir-103a-2/Upstream/1091482; hsa-mir-1-1/Downstream/398679;
Nearest TSS
ENST00000382410/Upstream/22984; ENST00000421092/Downstream/2431;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/304063, chr20-CpG: 184/Downstream/22905
Upstream sequence
ATTCTTTCAATGTTCCGTTTACTCATTCTTCCAACAAACATGAGCCACTGAATAGCTATAAACTAATcttatactctatgcgggaaagcagacaacaaac
Downstream sequence
aacaaataaacaaaatgattttaaataataactactataaaggaaataagacaatgtggaataatgtggttgtgaggctactttatattgagtaacctga
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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