Basic Information
VIS ID
TVIS30009593
Fusion event
HIV-UBR5 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
chr8
Cytoband
q22.3
Reference genome
GRCh37/hg19
Start
103274620/102262392 (Hg38)
End
103274620/102262392 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA8A
Target gene
UBR5
miRNAs that regulate target gene
hsa-mir-484 ; hsa-mir-1-3p ; hsa-mir-93-5p ; hsa-mir-21-5p ; hsa-mir-331-3p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-27b-3p ; hsa-mir-27a-3p ; hsa-mir-519d-3p ; hsa-mir-17-5p ; hsa-mir-20b-5p ; hsa-mir-22-3p
Nearest miRNA
hsa-mir-12123/Upstream/136877; hsa-mir-10400/Downstream/892222;
Nearest TSS
ENST00000518652/Upstream/406; ENST00000523572/Downstream/5043;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/22544, chr8-CpG: 122/Downstream/149425
Upstream sequence
AAATATAAAGCCAAAAGCATAATAGTTTTAAAGTTCCAAAACTGCAAAACTTTGCactacttattaaacaccaattatggggagcagccggctctgaact
Downstream sequence
taatatacatcttattaattcttgatagtaacataaaatatagattattaaatccagatgataaatctgacactcaaggaaatttagtaacttgccccaa
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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