Basic Information
VIS ID
TVIS30004561
Fusion event
HIV-SMG1P2 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
p11.2
Reference genome
GRCh37/hg19
Start
30280967/30269646 (Hg38)
End
30280967/30269646 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
SMG1P2
Nearest miRNA
hsa-mir-1225/Upstream/670381; hsa-mir-11401/Downstream/234273;
Nearest TSS
ENST00000527434/Upstream/15136; ENST00000563252/Downstream/85288;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/46329, chr16-CpG: 90/Downstream/65085
Upstream sequence
cgaaatcgcgccactgcactccagcctgggcaacagagtgagactctgtctcaacaaaaaagaaaaTCGGTAAGTCAATCTACTATTTAAGGGGACAAAT
Downstream sequence
CTAGACCTGCATTAGCAAATCTTGCTCAATCCAGAATACTCATTAAACTTTTTAATAACATCTTATCAAGTGTTCCATTTGTGATAAAGAACTTAATGAG
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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