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PACE SNP Genotyping Assays

Cost effective genotyping assays for low to high throughput screening

PACE (PCR Allele Competitive Extension) SNP genotyping assays are well-suited for projects that require a reliable, cost-effective approach for SNP and indel detection. PACE is especially suitable for high volume screening projects, such as plant breeding research. IDT and 3CR Bioscience (UK) have partnered to provide optimally designed genotyping assays with a high performance master mix, all provided in a short delivery time and at the lowest overall cost in the industry. Learn more about our partnership and how PACE technology works.

  • Screen larger sample libraries affordably
  • Get cleaner data from an improved reduction in non-specific amplification
  • Change reaction volumes without losing performance or ordering a different master mix

Contact our experts to discuss whether this technology is right for your genotyping project. Contact us »


Assays (Allele-specific forward and common reverse primers)

  1. Step 1—Have us design your primers: Contact IDT at and provide your SNP coordinates or sequences with identified SNPs. IDT works directly with 3CR, the originators of the PACE assay, to design the primers.
  2. Step 2—Send us your primer designs for synthesis: Order the allele-specific forward and common reverse primers by sending your order details to

Genotyping Master Mix

Order the PACE Genotyping Master Mix from 3CR by going to

The PACE (PCR Allele Competitive Extension) SNP genotyping system is a fluorescent, endpoint genotyping technology that uses competitive allele-specific PCR. It makes use of a universal PCR master mix (PACE Genotyping Master Mix) with allele-specific primers and a common reverse primer for bi-allelic genotyping. The PACE reaction is specific and produces fluorescent signal that is easy to detect on fluorescent plate readers and real time PCR systems.

Learn more about our partnership with 3CR Bioscience and how PACE technology works.

PACE is a trademark of 3CR Bioscience.

Competitive with industry leader, both on data and cost

The PACE genotyping method and industry-leading KASP system are both easy to use, and the 2 methods produce very similar quality data, as shown in Figure 1. However, the PACE Master Mix is a better use of research funds, especially when using larger pack sizes.

Figure 1. The PACE genotyping system provides improved, cost-effective genotyping compared to the leading industry method, KASP. Genotyping was performed on purified corn DNA samples. Distinct genotyping assays (4) were selected to assess sequence variability that can affect genotyping outcome. (A) Normal GC/AT content (48% GC). (B) Slightly GC-rich content (68%), (C) AT-rich content (28% GC), and (D) Slighly AT-rich content (40% GC). master mixes for the PACE and KASP methods were used for genotyping each of the 4 assays (identical primers and samples), in 4 µL reactions, following each manufacturer's protocol. Assay results were analyzed as cluster plots. Genotyping clusters from the PACE reactions were as well or better defined than the KASP reactions. In addition, the clusters of the PACE reactions were optimal at a fixed number of PCR cycles, whereas with KASP reactions, different cycle numbers were needed.

Frequently asked questions