Basic Information
VIS ID
TVIS30005590
Fusion event
HIV-PTPN20 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
chr10
Cytoband
q11.22
Reference genome
GRCh37/hg19
Start
48777561/46961799 (Hg38)
End
48777561/46961799 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA10G
Target gene
PTPN20
Nearest miRNA
hsa-mir-1265/Upstream/1797711; hsa-mir-107/Downstream/2023713;
Nearest TSS
ENST00000439456/Upstream/21217; ENST00000580279/Downstream/338587;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/50030, chr10-CpG: 93/Downstream/338242
Upstream sequence
TCCTGGACCCAGGCCATAAGATATTCCCTACACCTGCAGAATGGACAAAATAACAAAGGAGGTACcgcctgaggccttcctaagactgagactgaacaag
Downstream sequence
gacagcagagaatgtcaccccaaccaggttggcaagcaaggtaatcataagtaagagctctctactgctgggaattagagaagatcatggagaagacctt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate