Basic Information
VIS ID
TVIS30005545
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
6597750/6555788 (Hg38)
End
6597750/6555788 (Hg38)
Orient
-
Location type
Intronic
Target gene
PRKCQ
Nearest miRNA
hsa-mir-3155a/Upstream/403511; hsa-mir-107/Downstream/5574972;
Nearest TSS
ENST00000439456/Upstream/43616; ENST00000448835/Downstream/24513;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/334880, chr10-CpG: 77/Downstream/24157
Upstream sequence
TACCACATGGTGGATTTAAAAAAAAACAGGGTATGGGCCAGGTgggcacggtagctcacatctgtaatcccagaactttgggaggcaaaggtgggcagat
Downstream sequence
cacttgagatcaggagttcaagtctagcctaactaacatggcaaaaccacgtctctactaaaaaaacaaaaattagctggggtggtggtggatgcctgta
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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