Basic Information
VIS ID
TVIS30001571
Fusion event
HIV-PDE4B 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
p31.3
Reference genome
GRCh37/hg19
Start
66817438/66351755 (Hg38)
End
66817438/66351755 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1L
Target gene
PDE4B
miRNAs that regulate target gene
hsa-mir-374a-5p ; hsa-mir-26b-5p ; hsa-mir-26a-5p ; hsa-mir-330-5p ; hsa-mir-34a-3p
Nearest miRNA
hsa-mir-101-1/Upstream/1293247; hsa-mir-11399/Downstream/276685;
Nearest TSS
ENST00000473358/Upstream/19566; ENST00000524999/Downstream/2627;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/558520, chr1-CpG: 35/Downstream/181290
Upstream sequence
ACAAGTATGAAATGTTAGGGTTGATCATTCTCATTTTACACATGAGAGGTGATGTAACTACACAGGAGAGTGAGAGCTGAGAATGAAAAGTCAAGATTTG
Downstream sequence
TCTACTACATTGTGGCTGCCTCTGGCTCAACAGAAACACTCCCATGTGGGAGTCAGATGCTGAAAGCCCAACTAAGCCTAGCTCCTCAACTGTCTCCTCA
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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