Basic Information
VIS ID
TVIS30009539
Fusion event
HIV-PRKDC 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
chr8
Cytoband
q11.21
Reference genome
GRCh37/hg19
Start
48732621/47820060 (Hg38)
End
48732621/47820060 (Hg38)
Orient
+
Location type
Intronic
Target gene
PRKDC
miRNAs that regulate target gene
hsa-mir-101-5p ; hsa-mir-218-5p
Nearest miRNA
hsa-mir-124-1/Upstream/4923785; hsa-mir-10400/Downstream/13894728;
Nearest TSS
ENST00000518652/Upstream/35921; ENST00000520994/Downstream/44732;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/55512, chr8-CpG: 28/Downstream/11220
Upstream sequence
TTTATACAAGACATTCACTTACAAACAAACAACTGTCAGGAAAAGATTCGCAGAAAAGCAAAAAGGAAAGAAAGAGTGGCAGCAAACAATCAGGAAAGAT
Downstream sequence
CAACCCCTGCTCTTCTCTACAAAGCAACCAAACTTCCATTCCGCTACCCCAAATAGAAAAGTCTACTCTTggtcaggagcgttggctcacgtctgtaatc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate