Choose from dual-labeled qPCR probes, molecular beacons, FRET designs, MGB and Affinity-Enhanced chemistries, PNA FISH, branched DNA (bDNA) amplifiers, and complete MERFISH encoding/readout sets. We provide fast design support, RUO → cGMP-like manufacturing
Bio-Synthesis manufactures custom qPCR probes for real-time PCR, RT-qPCR, genotyping, pathogen detection, copy number analysis, mutation screening, and multiplex assay development. Designs can be tuned for Tm, length, mismatch discrimination, dye/quencher pairing, signal-to-noise, purification level, and documentation needs.
Reporter and quencher designs
Hydrolysis, beacon, FRET formats
Dye/channel balancing support
HPLC, PAGE, MS, CoA options
Nine core probe offerings presented as quick-scan cards. Each card links to the relevant Bio-Synthesis subpage for deeper design, chemistry, and ordering details.
5′ reporter / 3′ quencher hydrolysis probes for real-time PCR assays with strong signal-to-noise, fast cycling, and robust multiplexing.
Reporter/quencher libraries, internal quenchers, short-amplicon tuning, dark quencher selection, and multiplex qPCR kit support.
Minor groove binder probe designs raise Tm for shorter probes and improve SNP, mutation, and mismatch discrimination.
Stem-loop probes that fluoresce only upon target hybridization, useful for allele discrimination, multiplexing, and wash-free detection formats.
Donor–acceptor probe pairs for distance-dependent, ratiometric, LightCycler-style, or drift-resistant fluorescence readouts.
Error-robust barcode probe sets and dye-balanced readouts for spatial transcriptomics and high-plex RNA imaging workflows.
Branched DNA amplifier systems build layered signal amplification structures for brighter detection of low-copy RNA targets.
Peptide nucleic acid probes provide strong, salt-tolerant binding for rapid FISH/ISH identification and high-specificity hybridization.
Locked, bridged, and constrained nucleic acid modifications can shorten probe length and sharpen target discrimination.
Bio-Synthesis can support sequence design, dye/quencher pairing, purification, QC, documentation, and scale-up for individual probes or panel projects.
Successful qPCR probe performance depends on probe architecture, Tm alignment, reporter and quencher compatibility, target accessibility, mismatch discrimination, multiplex channel balancing, purification, and overall assay chemistry.
Probe melting temperature should typically remain above primer Tm to support stable target binding during amplification. Shorter probes may improve mismatch discrimination, especially for SNP or mutation assays.
Reporter and quencher selection affects signal intensity, background suppression, spectral separation, and multiplex compatibility across instrument channels.
Dye-labeled qPCR probes often benefit from higher-purity workflows because truncated sequences or incomplete labeling can increase background and reduce assay consistency.
Bio-Synthesis can support hydrolysis probes, molecular beacons, FRET probes, MGB probes, and affinity-enhanced probe chemistries for singleplex and multiplex qPCR workflows.
For short SNP assays, pair MGB or affinity-enhancing chemistries with a dark quencher to improve mismatch discrimination while maintaining strong target affinity and fluorescence response.
A more visual project path from assay review to finished, QC-supported qPCR probe delivery.
Confirm target sequence, assay type, primer/amplicon context, instrument channels, multiplex needs, and performance goals.
Select hydrolysis, beacon, FRET, MGB, LNA/BNA/cEt, reporter dye, quencher, spacer, and probe architecture.
Manufacture, purify, quantify, and verify probes using HPLC, PAGE, MS, dye loading review, or CoA documentation.
Deliver probes in tube, plate, pooled, normalized, lyophilized, liquid, kitted, or scale-up-ready formats.
Probe deliverables can be configured for research-use projects, development programs, and qualified scale-up needs.
Discuss assay format, dye/quencher pair, probe Tm, MGB or LNA options, multiplex channels, and QC requirements.
Include target, probe sequence, dye, quencher, scale, purification, delivery format, and documentation needs.
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