Basic Information
VIS ID
TVIS30001733
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
6601912/6559950 (Hg38)
End
6601912/6559950 (Hg38)
Orient
+
Location type
Intronic
Target gene
PRKCQ
Nearest miRNA
hsa-mir-3155a/Upstream/407673; hsa-mir-107/Downstream/5570810;
Nearest TSS
ENST00000439456/Upstream/47778; ENST00000448835/Downstream/20351;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/339042, chr10-CpG: 77/Downstream/19995
Upstream sequence
acatcatattttgcatatttatggggcacatgtggtatttcgttacgtacacagaatgtgtagtggtcaagtcactgtatttgaggtGCCTGACTTTACC
Downstream sequence
TTATTTGTGTGttatttacttagctattgtctttctactccaaaaaaaagtaggcataggcttgacgagggtcagtacctttctccttctcttctcccct
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate