Basic Information
VIS ID
TVIS30003546
Fusion event
HIV-PPP4R2 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
chr3
Cytoband
p13
Reference genome
GRCh37/hg19
Start
73067991/73018840 (Hg38)
End
73067991/73018840 (Hg38)
Orient
-
Location type
Intronic
Target gene
PPP4R2
miRNAs that regulate target gene
hsa-mir-9-5p ; hsa-mir-186-5p ; hsa-mir-561-3p ; hsa-mir-548at-5p ; hsa-mir-1277-5p ; hsa-mir-297 ; hsa-mir-3924 ; hsa-mir-190a-3p ; hsa-mir-567 ; hsa-mir-5011-5p ; hsa-mir-4662a-5p ; hsa-mir-1277-3p ; hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-655-3p ; hsa-mir-374c-5p ; hsa-mir-3124-3p ; hsa-mir-1304-3p ; hsa-mir-1285-5p ; hsa-mir-369-3p ; hsa-mir-5580-3p
Nearest miRNA
hsa-let-7g/Upstream/1476751; hsa-mir-12124/Downstream/2195636;
Nearest TSS
ENST00000440867/Upstream/21482; ENST00000533473/Downstream/42819;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/21474, chr3-CpG: 21/Downstream/91866
Upstream sequence
ATTGCCTCATATGTTCTTCCTTATGGGATACCTTCAACTTGTCTTTTAAGACTGTTCAGATGGCCCCCATTCAAATATATATTATTTACTGAGAAGTTTT
Downstream sequence
CTTGGATCTCCTTTTCTCAATAAAAACTGCCATATTTCTGACATGTATCAATTGCATTTTCTGTTATAGCTGTTTGCTTACTAGTCTGTTTCTACTTGTG
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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