Basic Information
VIS ID
TVIS30010021
Fusion event
HIV-DKC1 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
chrX
Cytoband
q28
Reference genome
GRCh37/hg19
Start
153998852/154770577 (Hg38)
End
153998852/154770577 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRAXE ; FRAXF
Target gene
DKC1
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-16-5p ; hsa-mir-935
Nearest miRNA
hsa-let-7f-2/Upstream/1921; hsa-mir-1184-1/Downstream/116783;
Nearest TSS
ENST00000429181/Upstream/2034; ENST00000481062/Downstream/2567;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/7021, chrX-CpG: 61/Downstream/34514
Upstream sequence
aaaaaaaaaaaagaaaATACTTGTGAGTCTCTAGAACCTGAAAACCTGAAAGTCTTCTTTACTACTTTTGAGTCGTGTGTAATGTGCGGAGAGTGGTACC
Downstream sequence
TATAGCACAGTGAGGTGGCTCTTCTGAGTACCACTCATGCCCCTTGCAGCTAGTGGGCTATAAGTGTCATCCCTGTTTCCTGGTGTCAGGCCCCACTCCC
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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