Basic Information
VIS ID
TVIS30014460
Fusion event
HIV-PRDM2 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
chr1
Cytoband
p36.21
Reference genome
GRCh37/hg19
Start
14039577/13713082 (Hg38)
End
14039424/13713082 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
PRDM2
miRNAs that regulate target gene
hsa-mir-106b-3p ; hsa-mir-541-5p ; hsa-mir-7154-5p ; hsa-mir-203b-3p ; hsa-mir-6854-5p ; hsa-mir-488-3p ; hsa-mir-5195-3p ; hsa-mir-145-5p ; hsa-mir-8065 ; hsa-mir-3656 ; hsa-mir-6730-5p ; hsa-mir-5681a ; hsa-mir-708-5p ; hsa-mir-3139 ; hsa-mir-28-5p ; hsa-mir-4668-5p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-542-3p ; hsa-mir-4504 ; hsa-mir-6866-3p ; hsa-mir-188-5p ; hsa-mir-605-5p ; hsa-mir-4668-3p ; hsa-mir-548c-3p
Nearest miRNA
hsa-mir-12136/Upstream/1134059; hsa-mir-101-1/Downstream/3145867;
Nearest TSS
ENST00000473358/Upstream/8227; ENST00000502724/Downstream/17936;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/12377, chr1-CpG: 116/Downstream/35690
Nearest cancer related gene
PRDM2(TSG, No orient, 0)
Upstream sequence
cagccttgtgaggcttctcgcttttgcttccacctccacctccatataacatttctccccatactttcctggtttgaagctcgtccctttcctggctttt
Downstream sequence
atgtagactgctccttctcaatccttctctgaccacactgttgaatttgcatagagattgtagtaactatctccctctccataactctttatttttttct
Target sequence
actctgcaccagccacaccaacatcctggctccctctctgcttccccaggctgcagccttgtgaggcttctcgcttttgcttccacctccacctccatataacatttctccccatactttcctggtttgaagctcgtccctttcctggctttt
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