Basic Information
VIS ID
TVIS30015324
Fusion event
HIV-PRKCB 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
chr16
Cytoband
p12.2
Reference genome
GRCh37/hg19
Start
23946910/23935589 (Hg38)
End
23947154/23935589 (Hg38)
Orient
+
Location type
Intronic
Target gene
PRKCB
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-142-5p ; hsa-mir-3650 ; hsa-mir-4796-3p ; hsa-mir-5590-3p ; hsa-mir-6867-5p ; hsa-mir-1261 ; hsa-mir-3614-5p ; hsa-mir-381-3p ; hsa-mir-300 ; hsa-mir-890 ; hsa-mir-574-5p ; hsa-mir-4455 ; hsa-mir-4999-5p ; hsa-mir-4718 ; hsa-mir-1537-5p ; hsa-mir-4742-3p ; hsa-mir-93-5p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-20a-5p ; hsa-mir-17-5p ; hsa-mir-106b-5p ; hsa-mir-106a-5p ; hsa-mir-548ah-5p ; hsa-mir-3609 ; hsa-mir-6868-3p ; hsa-mir-627-3p ; hsa-mir-1248 ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-6074 ; hsa-mir-4753-3p ; hsa-mir-6809-3p ; hsa-mir-130b-5p ; hsa-mir-3180-5p ; hsa-mir-6780a-3p ; hsa-mir-6881-3p ; hsa-mir-525-5p ; hsa-mir-520a-5p ; hsa-mir-877-3p ; hsa-mir-488-5p ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-6875-3p ; hsa-mir-4778-3p ; hsa-mir-184 ; hsa-mir-33a-5p
Nearest miRNA
hsa-mir-1225/Upstream/2429454; hsa-mir-11401/Downstream/267527;
Nearest TSS
ENST00000527434/Upstream/98366; ENST00000647422/Downstream/28127;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/98808, chr16-CpG: 44/Downstream/320130
Nearest cancer related gene
PRKCB(TSG, No orient, 0)
Upstream sequence
AGCATACAATTAACGTTAAATCACACCAGCTTTGGGCATATATATCCCTCCTCCACCCCAAAATCTCTTTTAAAATAGTGTTTTAAATGTATTTTTTGTA
Downstream sequence
catagacataaatatgaaactagacactggactactggaagttagagggaggggtgggtttaaaaactacctgtcgagcactgtgctcactgccagggtg
Target sequence
GTATGTTCacaggactcaaaaaaaaatacaaaatgctgcactattcacaataacaaagatatggaatcaacccaggtgcccatcagtggcagaatactatgcagtcataaaagagaatgaaatcatatcctttgcagcaacatggatggagctggaggccattattttaagcaaattagagcaagaacagaaaatcaaatactgcatattctcactgataagggagagctaagcattgagcaca
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