Basic Information
VIS ID
TVIS30010294
Fusion event
HIV-RFC3 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
chr13
Cytoband
q13.2
Reference genome
GRCh37/hg19
Start
34408048/33833911 (Hg38)
End
34408048/33833911 (Hg38)
Orient
+
Location type
Intronic
Target gene
RFC3
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-93-5p ; hsa-mir-20a-5p
Nearest miRNA
hsa-mir-2276/Upstream/9671407; hsa-mir-1267/Downstream/5830123;
Nearest TSS
ENST00000623511/Upstream/3159; ENST00000605909/Downstream/514132;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/15555, chr13-CpG: 79/Downstream/1108323
Nearest cancer related gene
RFC3(OG, No orient, 0)
Upstream sequence
tggctcaaatacacaagtcttgatggaagcctgacctgtctgaacttcaggtttgtttcagtaaaaGAGCATCATTGTTGTGGGGAATTAATAGTGTATT
Downstream sequence
GCAGCGAACCTAGTACAGAATTAAGGTGTTAAATACTTTCACAGAcattggaaagggtgtggactttggagtaagaaagatagatctgtgttaaatcatg
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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