Basic Information
VIS ID
TVIS30004861
Fusion event
HIV-PTPN23 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
p21.31
Reference genome
GRCh37/hg19
Start
47432878/47391388 (Hg38)
End
47432878/47391388 (Hg38)
Orient
+
Location type
Intronic
Target gene
PTPN23
miRNAs that regulate target gene
hsa-mir-148a-3p ; hsa-mir-20a-5p ; hsa-let-7b-5p ; hsa-mir-142-3p
Nearest miRNA
hsa-mir-12127/Upstream/2529407; hsa-let-7g/Downstream/458167;
Nearest TSS
ENST00000440867/Upstream/10318; ENST00000477276/Downstream/13892;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/9699, chr3-CpG: 42/Downstream/26736
Nearest cancer related gene
PTPN23(TSG, No orient, 0)
Upstream sequence
AAATGGAATGGTCTAATATGGAaagaacatgggctctggagcccaaatgcctgggtttcagtcatatccccatcagttattagcaccgtgaccttggtga
Downstream sequence
ataccctaactctttgcctcagtttcctcatttcctcatctgtaaagtggtgatgataatagtgtctacctcttagggttgttctaaggatggagtgatt
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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