Basic Information
VIS ID
TVIS30001734
Fusion event
HIV-PRKCQ 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
p15.1
Reference genome
GRCh37/hg19
Start
6619527/6577565 (Hg38)
End
6619527/6577565 (Hg38)
Orient
-
Location type
Intronic
Target gene
PRKCQ
Nearest miRNA
hsa-mir-3155a/Upstream/425288; hsa-mir-107/Downstream/5553195;
Nearest TSS
ENST00000439456/Upstream/65393; ENST00000448835/Downstream/2736;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/356657, chr10-CpG: 77/Downstream/2380
Upstream sequence
ACAGAAACAGCAAGCATGAGTTTAATGCTATGTATGCCGTCACAATACTAATTTCTCTATTTTAAATTACAGATTacacacacacatacacacacacacG
Downstream sequence
GAATCACGTCTATATTGCTGGGATTTTCATTATATAACAATATATCATTTTAAATGATTTGAGGCAAATTATTGAAAAAAATTAAAGACTGAACTCCATA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate