Basic Information
VIS ID
TVIS30004933
Fusion event
HIV-UBE3D 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
chr6
Cytoband
q14.1
Reference genome
GRCh37/hg19
Start
83721484/83011765 (Hg38)
End
83721484/83011765 (Hg38)
Orient
+
Location type
Intronic
Target gene
UBE3D
Nearest miRNA
hsa-mir-10398/Upstream/4472456; hsa-mir-1202/Downstream/7300977;
Nearest TSS
ENST00000381078/Upstream/79164; ENST00000604380/Downstream/46204;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/646163, chr6-CpG: 39/Downstream/53890
Upstream sequence
taggaggagtccaaagtgtccaagtggcaatcttaacttccagtttaatggaatcgttgttttgtctcctcgtggcagcgttgctcccactggaactaag
Downstream sequence
acctctagtccagtggaaagcaatgttgtgggaagaggaagcaaaaattttgctagtggatggatcactaggggtgatggtgaatggtgccacttccact
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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