Basic Information
VIS ID
TVIS30001938
Fusion event
HIV-PCF11 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
chr11
Cytoband
q14.1
Reference genome
GRCh37/hg19
Start
82878671/83167629 (Hg38)
End
82878671/83167629 (Hg38)
Orient
+
Location type
Intronic
Target gene
PCF11
miRNAs that regulate target gene
hsa-mir-15a-5p ; hsa-let-7c-5p ; hsa-mir-1909-5p ; hsa-mir-33b-3p ; hsa-mir-4330 ; hsa-mir-4421 ; hsa-mir-490-3p ; hsa-mir-515-3p ; hsa-mir-519e-3p ; hsa-mir-548u ; hsa-mir-5699-3p ; hsa-mir-649 ; hsa-mir-6831-3p ; hsa-mir-7161-5p ; hsa-mir-759
Nearest miRNA
hsa-mir-10392/Upstream/1276793; hsa-let-7a-2/Downstream/3110704;
Nearest TSS
ENST00000527297/Upstream/10469; ENST00000530906/Downstream/3622;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/10111, chr11-CpG: 90/Downstream/25807
Upstream sequence
ATAGTCCTACAGAAGAAAATAAAGGTGGATTAAAAAAGAAACCTCTCTTATCTGATGCTGAATTAACCTACTATGAACATAAAGCAAAACTGAAAAGGAC
Downstream sequence
ACAGGTTCAGCATTCATTTCCAAGACTTGATCTCTTAGATCCTGATATTTTTGACTACCCTTTGACTGATGCCTTGTTGTCTGGAATAGAATGTGAGCCA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate