Basic Information
VIS ID
TVIS30010656
Fusion event
HIV-PPP4R3B 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
chr2
Cytoband
p16.1
Reference genome
GRCh37/hg19
Start
55779254/55552118 (Hg38)
End
55779254/55552118 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
PPP4R3B
miRNAs that regulate target gene
hsa-mir-106b-5p ; hsa-mir-31-5p ; hsa-mir-16-5p
Nearest miRNA
hsa-mir-1301/Upstream/1702913; hsa-mir-10b/Downstream/430849;
Nearest TSS
ENST00000437798/Upstream/8098; ENST00000608113/Downstream/21600;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/32255, chr2-CpG: 79/Downstream/65013
Upstream sequence
ACAAACATTTGTATTCCAAATGGTTAACACTTAATTGTTTCTGCCCAAGATTAATAAATTGTCTGAAAAACTCACTTATACAATTTGAGTTTTACTTATA
Downstream sequence
TTATCTCTGCAAACTAACATACATTTAAAACATGTTTACAATAAAAATAATAAAAATGCAAAATATGAAATGTTGGAAGTAAAAAGGCCTGTAATCTAGA
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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