Basic Information
VIS ID
TVIS30013102
Fusion event
HIV-PBRM1 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
chr3
Cytoband
p21.1
Reference genome
GRCh37/hg19
Start
52663865/52629849 (Hg38)
End
52663865/52629849 (Hg38)
Orient
+
Location type
Intronic
Target gene
PBRM1
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-mir-155-5p ; hsa-mir-93-5p ; hsa-mir-21-5p ; hsa-mir-1229-3p ; hsa-mir-1226-3p ; hsa-mir-877-3p ; hsa-mir-3686 ; hsa-mir-3607-3p ; hsa-mir-4528 ; hsa-mir-5583-5p ; hsa-mir-3129-3p ; hsa-mir-7844-5p ; hsa-mir-30e-5p ; hsa-mir-30d-5p ; hsa-mir-30b-5p ; hsa-mir-30c-5p ; hsa-mir-181c-5p ; hsa-mir-181d-5p ; hsa-mir-181b-5p ; hsa-mir-181a-5p ; hsa-mir-485-3p
Nearest miRNA
hsa-let-7g/Upstream/335541; hsa-mir-12124/Downstream/216614;
Nearest TSS
ENST00000440867/Upstream/14450; ENST00000468885/Downstream/48718;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/93023, chr3-CpG: 69/Downstream/55638
Nearest cancer related gene
PBRM1(TSG, No orient, 0)
Upstream sequence
CTATATGGATTTAGACAGGACAGACTTTAAATCTTTTGATTGTAGCATTTGCACGTTAACCATCAAAATCACAAAGACAGTTAACAATAATATGTATAAA
Downstream sequence
CAGCTTCACAGAATAAGTGAATTTTCTCTTAGAATGGCATCTGCATGTAAAGTTTTATTTAAAATTTACCAAAATCATATTCAGATTCTGTGTTGTGCTC
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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