Basic Information
VIS ID
TVIS30000123
Fusion event
HIV-ARHGEF18 integration
Validated
Yes
Detection method
dd-PCR+WGA
Data source
download(RID)
Sample type
PBMC
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2019
PubMed ID
30688658
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr19
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
7465009/7400123 (Hg38)
End
7465009/7400123 (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/663345; hsa-let-7e/Downstream/217316;
Nearest TSS
ENST00000633603/Upstream/4971; ENST00000595600/Downstream/39565;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/4633, chr19-CpG: 31/Downstream/39914
Upstream sequence
gtctcccaaagtgttggtattatagatgtgagtcaccatgcacggcTTCATACACTGATTTATGGTCATATATTGAAAAAATATATATTCTAAAGGTTTC
Downstream sequence
ACTAACAGTACACGTTTAACACATTGTGGATGGTGGATGGTTACATTTTTAATTCACGTCACTtttttaatacagcagctttattgaaatataattagca
Reference
Einkauf, K. B., et al. Intact HIV-1 proviruses accumulate at distinct chromosomal positions during prolonged antiretroviral therapy. J Clin Invest,2019, 129(3): 988-998.
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