Basic Information
VIS ID
TVIS30004853
Fusion event
HIV-PPP6R2 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
chr22
Cytoband
q13.33
Reference genome
GRCh37/hg19
Start
50809349/50370920 (Hg38)
End
50809349/50370920 (Hg38)
Orient
+
Location type
Intronic
Target gene
PPP6R2
miRNAs that regulate target gene
hsa-mir-130b-3p ; hsa-mir-93-5p ; hsa-mir-19b-3p ; hsa-mir-149-5p ; hsa-mir-92a-3p
Nearest miRNA
hsa-let-7a-3/Upstream/407981; hsa-mir-12114/Downstream/36522;
Nearest TSS
ENST00000624155/Upstream/27589; ENST00000473283/Downstream/1152;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/27340, chr22-CpG: 20/Downstream/35809
Upstream sequence
acggggtttcaccatgttggccaggctaatcttgaactcctgacctcatgatccacccgcctcggcctcccaaagtgttgggattataggcgtgagccac
Downstream sequence
tgcccccagccACAAATGTAGGACCTATTTCTAAGAAACCCTTTGTAGAGGTCAGGGTATTGGGAATCCtaatttaaaaatatttttaatCATTATTGGA
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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