Basic Information
VIS ID
TVIS30010167
Fusion event
HIV-USP47 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
p15.3
Reference genome
GRCh37/hg19
Start
11898582/11877035 (Hg38)
End
11898582/11877035 (Hg38)
Orient
+
Location type
Intronic
Target gene
USP47
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-34a-5p ; hsa-mir-21-5p ; hsa-mir-204-5p ; hsa-mir-218-5p ; hsa-let-7a-5p ; hsa-let-7b-5p ; hsa-let-7c-5p ; hsa-let-7d-5p ; hsa-let-7e-5p ; hsa-let-7f-5p ; hsa-let-7g-5p ; hsa-let-7i-5p ; hsa-mir-202-3p ; hsa-mir-4458 ; hsa-mir-4500 ; hsa-mir-4711-5p ; hsa-mir-7112-3p ; hsa-mir-8066 ; hsa-mir-98-5p
Nearest miRNA
hsa-mir-210/Upstream/93813; hsa-let-7a-2/Downstream/286648;
Nearest TSS
ENST00000527297/Upstream/34969; ENST00000525367/Downstream/3151;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/34564, chr11-CpG: 94/Downstream/131155
Upstream sequence
tttgctatctttaatccacctcaAGACGTAATTGTTTTTACCTTTGGGCATAAGTAGGATCAGTTTTGGTTAGGGCTACAAAGAAATTAAGAAAGATAGC
Downstream sequence
TGCCCTAATTTCCCATTTCCAGAAAAAACCTTTTTACATTTAAATGTTTTGGAAATGTTTCCTGCATGTTTAATTTATATTGTATAGGTTTTTTTCTCTT
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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