Genotyping by real-time PCR, whether for the confirmation of single nucleotide polymorphisms (SNPs) or as a screen for panels of markers in hundreds or even millions of samples, is a well-known and demonstrated approach used widely in both research and industrial settings. Life Technologies is the leader in providing real-time PCR instruments, TaqMan® Assays, and reagents that generate reliable results for validation and screening.

Flexible, high-throughput genotyping by real-time PCR with the QuantStudio™ 12K Flex Real-Time PCR System and Custom TaqMan® SNP Genotyping Assays

Custom TaqMan® SNP Genotyping Assays

Custom TaqMan® SNP Genotyping Assays provide a highly flexible technology for detection of polymorphisms within any genome. Create your own assays by submitting confidential target sequences to our secure assay design pipeline using the Custom TaqMan® Assay design tool. This pipeline has successfully generated millions of assay designs by utilizing heuristic rules deduced from both manufacturing and assay performance data.

Custom TaqMan® Assay Manufacturing & Plating Service

Whether it’s zygosity analysis, or special manufacturing modifications such as a specific dye, assay volume/concentration, or plating format, Life Technologies can address your special needs. Contact your sales representative to discuss your needs.

Overview of workflow for genotyping by real-time PCR

Publications using Custom TaqMan® SNP Genotyping Assays

Title Authors Address Link
Mapping of the oat crown rust resistance gene Pc91. McCartney CA, Stonehouse RG, Rossnagel BG, Eckstein PE, Scoles GJ, Zatorski T, Beattie AD, Chong J  Crop Development Centre, University of Saskatchewan, 51 Campus Drive, Saskatoon, SK, S7N 5A8, Canada. View
A fluorogenic 5’ nuclease (TaqMan) assay to assess dosage of a marker tightly linked to red skin color in autotetraploid potato. De Jong WS, De Jong DM, Bodis M Department of Plant Breeding, Cornell University, Ithaca, NY 14853-1901, USA. View
Discovery and characterization of single nucleotide polymorphisms in Chinook salmon, Oncorhynchus tshawytscha. Clemento AJ, Abadía-Cardoso A, Starks HA, Garza JC. Southwest Fisheries Science Center, National Marine Fisheries Service, Santa Cruz, CA 95060, USA. View
SNP genotyping by the 5’-nuclease reaction: advances in high-throughput genotyping with nonmodel organisms. Seeb JE, Pascal CE, Ramakrishnan R, Seeb LW. School of Aquatic and Fishery Sciences, University of Washington, Seattle, WA, USA. View
A nanoliter fluidic platform for large-scale single nucleotide polymorphism genotyping. Roberts DG, Morrison TB, Liu-Cordero SN, Cho J, Garcia J, Kanigan TS, Munnelly K, Brenan CJ. BioTrove Inc., Woburn, MA 01810, USA. View
Simplex and duplex event-specific analytical methods for functional biotech maize. Lee SH, Kim SJ, Yi BY.  GMO Testing Laboratory, Experiment Research Institute of National Agricultural Products Quality Management Service, Seoul, South Korea. View
Quantitative real-time PCR assay for determining transgene copy number in transformed plants. Biotechniques. 2001 Jul;31(1):132-4, 136-40. Ingham DJ, Beer S, Money S, Hansen G. Syngenta, Research Triangle Park, NC, USA View

Ordering information

TaqMan ® GTXpress™ Master Mix and TaqMan® Sample-to-SNP™ Kit


Cat. No.


TaqMan® GTXpress™ Master Mix


400 reactions


4,000 reactions


2,000 reactions


40,000 reactions

TaqMan® Sample-to-SNP™ Kit


200 mL sample prep, 10 mL PCR


20 mL sample prep, 10 mL PCR


20 mL sample prep, 50 mL PCR


5 mL sample prep, 1 mL PCR


Custom TaqMan® SNP Genotyping Assays


Cat. No.


Custom TaqMan® SNP Genotyping Assays


Small: 1,500 reactions, 40x


Medium: 5,000 reactions, 40x


Large: 12,000 reactions, 80x

Order Custom TaqMan® SNP Genotyping Assays now


TaqMan® OpenArray® Genotyping Plates

Plate Format # of Samples/Plate Min. Order Total # of Samples/Min. Order
16 assays 144 10 1,440
32 assays 96 10 960
64 assays 48 20 960
128 assays 24 40 960
192 assays 16 60 960
256 assays 12 80 960

Learn about the TaqMan® OpenArray® Genotyping Plates
Learn about our TaqMan® Custom Plating Service

Special manufacturing request

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