Basic Information
VIS ID
TVIS30005921
Fusion event
HIV-RNF169 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
q13.4
Reference genome
GRCh37/hg19
Start
74496083/74785038 (Hg38)
End
74496083/74785038 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA11H
Target gene
RNF169
miRNAs that regulate target gene
hsa-mir-34a-5p
Nearest miRNA
hsa-mir-10392/Upstream/64701; hsa-let-7a-2/Downstream/550054;
Nearest TSS
ENST00000527297/Upstream/36170; ENST00000527301/Downstream/51454;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/35525, chr11-CpG: 51/Downstream/163848
Upstream sequence
CTTGTGCATATGCATGCATGCAACATTTAGCATAGAGTGTGCTTTTCATTAAACGTTAGCTGTTTTTACTTATTTATTATGGGGATTCTTCATTGGTTAC
Downstream sequence
TACTACTGTTACTTTTAATTGTGCTCTTCCGcattcctatgaggtagcttggccggtattttgatccccatttgatagacaggaagactaaggcaaagag
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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