Basic Information
VIS ID
TVIS30008876
Fusion event
HIV-DDX46 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
chr5
Cytoband
q31.1
Reference genome
GRCh37/hg19
Start
134113809/134778119 (Hg38)
End
134113809/134778119 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA5C
Target gene
DDX46
miRNAs that regulate target gene
hsa-mir-93-5p ; hsa-mir-21-5p ; hsa-mir-423-3p ; hsa-mir-99a-5p ; hsa-mir-138-2-3p ; hsa-mir-4482-3p ; hsa-mir-7159-3p
Nearest miRNA
hsa-mir-10397/Upstream/552267; hsa-mir-103a-1/Downstream/1024866;
Nearest TSS
ENST00000502646/Upstream/4334; ENST00000513987/Downstream/2617;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/19038, chr5-CpG: 78/Downstream/67674
Upstream sequence
cttttttttttttttttttgatacagagtctctcttttgcctaggctggagtgcaatggtgtgatcttggcttactgcatcctccacctcccaggcctat
Downstream sequence
gcagtctacctacctcagcctcccaagtagctggaactacatgtgtgcaccaccatgcctggctaatttttgtattttggtagagatgaggttttaccat
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate