Basic Information
VIS ID
TVIS30011199
Fusion event
HIV-DHDDS 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
chr1
Cytoband
p36.11
Reference genome
GRCh37/hg19
Start
26788120/26461629 (Hg38)
End
26788120/26461629 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
DHDDS
miRNAs that regulate target gene
hsa-mir-6513-5p ; hsa-mir-887-5p ; hsa-mir-3913-5p ; hsa-mir-3122 ; hsa-mir-450a-1-3p ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-6788-5p ; hsa-mir-1273h-5p ; hsa-mir-30c-2-3p ; hsa-mir-4316 ; hsa-mir-30c-1-3p ; hsa-mir-4710 ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-6804-5p ; hsa-mir-6089 ; hsa-mir-5008-5p
Nearest miRNA
hsa-mir-12136/Upstream/555175; hsa-mir-101-1/Downstream/92913;
Nearest TSS
ENST00000473358/Upstream/15265; ENST00000468388/Downstream/5653;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/29264, chr1-CpG: 159/Downstream/10246
Upstream sequence
catgcgccaccaatcccaactaattttgtatttttaatagagatggggtttctccatgttggtcaggctggtcttgaactctttacctcaggtgatccgc
Downstream sequence
ccgccttggcttcccaaagtgatgggattacaggcatgagccaccaagcccggccACACATAGAATACTTTAAGGGGGTTCACATAACTGCTGAAATCTG
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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