Basic Information
VIS ID
TVIS30015642
Fusion event
HIV-ARHGEF18 integration
Validated
Yes
Detection method
LM PCR
Data source
Curated
Sample type
PBMC
Disease
HIV-infected disease (HID)
Quality evaluation
Good
Reported year
2014
PubMed ID
24968937
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr19
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
7489445/7424559 (Hg38)
End
7489619/7424559 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
ARHGEF18
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-24-3p ; hsa-mir-221-3p ; hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-93-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p ; hsa-mir-1469 ; hsa-mir-4741 ; hsa-mir-4675 ; hsa-mir-5196-5p ; hsa-mir-4747-5p ; hsa-mir-3202 ; hsa-mir-3135a ; hsa-mir-4632-3p ; hsa-mir-769-5p ; hsa-mir-4786-5p ; hsa-mir-6857-3p ; hsa-mir-4329 ; hsa-mir-4446-3p ; hsa-mir-9500
Nearest miRNA
hsa-mir-1227/Upstream/687781; hsa-let-7e/Downstream/192880;
Nearest TSS
ENST00000633603/Upstream/29407; ENST00000595600/Downstream/15129;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/29069, chr19-CpG: 31/Downstream/15478
Upstream sequence
GGAGGCTCTTGTATGAAATTGGAATGCCTCGAATGTCTAACAGCAGGGAAACGATTAAAGCGATACTTACAAAGTCTATAGCAACGTGAAATACTTGTGT
Downstream sequence
gcctgtaatcccagcactttgggaggccgaggcgggcggatcacgagttcaggagatcgggaccatcctggccaacatggtgaaacctcatctctactaa
Target sequence
GTTCCCTGCAACTATAACTGAACATGTACACCCGTGTCAATAAAGATGGGGGCACAGAGACATTTGTAAGTGATGGTAAGAGTGCTGGTCGattttaatttaattttaaattttaGTTCACTCTTGTACTATTCATTAAGAAGGCTCAAATTTAgactgggcgcggtggctcac
Reference
Maldarelli, F., et al. Specific HIV integration sites are linked to clonal expansion and persistence of infected cells. Science,2014, 345(6193): 179-183.
Curate