Custom Plexor™ primers for real-time qPCR, gene expression, SNP genotyping, and multiplex assays using iso-dC / iso-dG fluorescence quenching chemistry.
Plexor™ primers are real-time qPCR primers based on the highly specific interaction between two modified nucleotides: isoguanine (iso-dG) and 5′-methylisocytosine (iso-dC). These modified bases form a unique base pair in double-stranded DNA and are designed to pair selectively with each other.
In a Plexor™ assay, the forward primer contains an iso-dC residue and a 5′ fluorescent label. During amplification, DABCYL-labeled iso-dG is incorporated opposite the iso-dC site, bringing fluorophore and quencher into close proximity. As PCR product accumulates, fluorescence is quenched and signal decreases in proportion to product formation.
This makes Plexor™ technology useful for gene expression analysis, SNP genotyping, multiplex qPCR, and assay-development workflows where simple primer design and no separate hydrolysis probe are desired.
Detection chemistry is built into the labeled forward primer and iso-dG system.
Multiple fluorophore channels can support multiplex qPCR assay formats.
Melt curve analysis can be performed with Plexor™ chemistry.
Listed products are available in standard dye and yield formats.
Plexor™ qPCR signal decreases as amplification product accumulates.
The Plexor™ workflow starts with denaturation of double-stranded DNA, followed by annealing and extension of a 5′ fluorophore-labeled forward primer containing iso-dC. In the next cycle, the reverse primer is extended, and when polymerase encounters iso-dC, a DABCYL-labeled iso-dGTP is incorporated. This brings fluorophore and quencher together and reduces fluorescence.
Plexor™ assays use a labeled forward primer and companion reverse primer, reducing the need for separate probe design.
Detection is enabled by iso-dC / iso-dG chemistry rather than a separate hydrolysis probe.
Different fluorophore-labeled Plexor™ primers can support multiplex real-time PCR assay formats.
Signal reduction can be monitored in real time for gene expression and target quantification workflows.
Plexor™ primers are commonly used for SNP genotyping and allele-detection applications.
Standard Plexor™ primers are HPLC purified and QC tested by MALDI-MS and analytical HPLC.
Plexor™ primers occupy a useful middle ground between dye-based qPCR and probe-based qPCR. They avoid a separate hydrolysis probe, while still providing sequence-directed detection through modified-base chemistry.
Bio-Synthesis provides fixed-price Plexor™ primer options for gene expression and genotyping, companion reverse primers, and human control gene primer sets. If you need a dye or quencher combination not listed below, contact us.
Forward Plexor™ primers include a 5′ fluorescent label and 1 iso-dC modified base. Listed yields are dual HPLC purified.
Pre-mixed Plexor™ control gene primer sets contain 0.5 nmoles of the Plexor™ primer and an unlabeled companion reverse primer.
Real-time qPCR assays for measuring target expression using labeled forward Plexor™ primers.
Genotyping workflows where modified-base specificity and fluorescent detection support allele analysis.
Multiple labeled Plexor™ primers can be used across different detection channels for multiplex assays.
Support for assays where target discrimination and real-time detection are required.
Custom primer formats for experimental qPCR assay optimization and screening.
Human GAPDH and β-Actin control primer sets are available in selected fluorophore formats.
Bio-Synthesis Plexor™ primer products are supplied with purification and analytical QC support appropriate for modified, fluorescently labeled oligonucleotides.
For the fastest review, send your target sequence, desired dye, primer design if available, quantity, purification preference, and intended Plexor™ application.
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