Basic Information
VIS ID
TVIS30007944
Fusion event
HIV-PTPRA 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
p13
Reference genome
GRCh37/hg19
Start
2859908/2879262 (Hg38)
End
2859908/2879262 (Hg38)
Orient
+
Location type
Intronic
Target gene
PTPRA
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-1292/Upstream/226420; hsa-mir-1-1/Downstream/1038232;
Nearest TSS
ENST00000382410/Upstream/5579; ENST00000356147/Downstream/43945;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/5273, chr20-CpG: 98/Downstream/166369
Upstream sequence
gagtgtcagagaagttcagcagctaaacaacatttgCAGTTAAACATTTGTGAAGGCCCTGAGCTGAGAAGGGATTTGGTAGCTCAGGGcagcgcttcgc
Downstream sequence
taacttgaatgtgctcatgaaccatctgggaatcttgttaaaatgccaagtcctgaatcagtaggtttggggtgggacttgggattctgtgttactaacc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate