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PrimeTime™ LNA® qPCR Probes

Shorter probes with high melting temperatures and increased specificity compared to traditional 5' nuclease probes

These locked nucleic acid probes are commonly used for genotyping and custom applications such as transcript variant identification or the differentiation of microbial species. When incorporated into a probe, locked nucleic acids impart heightened structural stability to the target sequence leading to increased hybridization temperature.

 

*LNA is a registered trademark of Qiagen, Inc.

Ordering

  • A wide variety of reporter and quencher combinations to choose from 
  • Small scale size available for discovery studies
  • Mismatch discrimination is improved when compared to traditional probes

See the Product details tab on the Affinity Plus™ qPCR Probes product page for design considerations or contact us for design assistance.

Prices listed include probe sequence (10–25 standard bases with up to 6 locked nucleic acid nucleotides), reporter, quencher, and HPLC purification.

PrimeTime Mini LNA qPCR Probes

PrimeTime Mini LNA qPCR Probes are ideal for screening a small sample set or performing a few reactions to optimize probe designs.

5' Reporter Dye(s)Quencher(s)Delivery Amount
0.5 nmol
FAMIowa Black™ FQ$174.00 USD
HEXIowa Black™ FQ$174.00 USD
YAKIowa Black™ FQ$174.00 USD

PrimeTime LNA qPCR Probes

PrimeTime LNA qPCR Probes are offered with a wider selection of dyes and quenchers than PrimeTime Mini LNA qPCR Probes, and are best-suited for large-scale or high-throughput applications.

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Product Details

Locked nucleic acid nucleotides can be incorporated into effective qPCR probes [1–4]. Because these bases significantly increase melting temperature (Tm), PrimeTime LNA qPCR Probes can be designed with shorter lengths than standard qPCR probes. Shorter probes have better quenching and a higher signal-to-noise ratio and are, therefore, more sensitive. More importantly, these probes offer an improved ability to distinguish mutations or single nucleotide polymorphisms (SNPs) [1]. A locked nucleic acid probe can be designed to have a ΔTm of >15°C, which increases the precision of allele determination in real-time PCR or other methods that use differential hybridization to distinguish polymorphisms.

For design strategies and tips, see the Product details tab on the Affinity Plus qPCR Probes product page or contact us. Design fees may apply.

PrimeTime LNA qPCR Probes can be ordered either at a guaranteed yield of 0.5 nmol or at defined synthesis scales to suit your research needs.

PrimeTime Mini LNA qPCR Probes

  • Ideal for analyzing a small sample set or performing a few reactions to optimize probe designs
  • Available with FAM, HEX, or Yakima Yellow® (YAK) fluorescent dyes, and Iowa Black® FQ quencher
  • Guaranteed normalized yield of 0.5 nmol

PrimeTime LNA qPCR Probes

  • Available with FAM, Cy® 3, Cy® 5, TEX, TYE™, YAK, and HEX dyes
  • High synthesis scales (250 nmol and 1 µmol) for large-scale and high-throughput requirements

Frequently asked questions

There are no structural differences between the locked nucleic acids used in Affinity Plus and PrimeTime LNA* qPCR Probes. Functional data can be found on the Affinity Plus qPCR Probes page. While these modified probes have identical chemical structures and physical properties, Affinity Plus qPCR Probes provide a better value.

Learn more about Affinity Plus qPCR Probes.

*LNA is a registered trademark of Qiagen.

View FAQ

Related products

Affinity Plus™ qPCR Probes

Use Affinity Plus qPCR Probes for enhanced discrimination of thermodynamically similar samples such as single nucleotide polymorphisms and transcript variants. The Affinity Plus bases used in these qPCR probes include up to 6 locked nucleic acid monomers. When incorporated into a probe, locked nucleic acids impart heightened structural stability, leading to increased hybridization melt temperature (Tm).

Learn more

PrimeTime™ qPCR Probe Assays

PrimeTime qPCR Probe Assays are 5′ nuclease assays that include both predesigned or custom assays. Predesigned assays can be chosen from a catalog of options for human, mouse, and rat sequences. Custom assays may be created for all species using the PrimerQuest™ Tool. Predesigned and custom assays can be provided in tubes or plates.

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PrimeTime™ qPCR Primer Assays

Analyze gene expression with intercalating dye-based qPCR assays. Our predesigned sequences for human, mouse, and rat targets will achieve ≥90% efficiency, guaranteed.*

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PrimeTime™ Gene Expression Master Mix

PrimeTime Gene Expression Master Mix is a hot-start master mix delivering high quality results under either conventional or fast cycling conditions. Optimized for probe-based qPCR.

Learn more

PrimeTime™ One-Step 4X Broad-Range Master Mix

PrimeTime One-Step 4X Broad-Range Master Mix is a ready-to-use 4X concentrated mixture that is designed for use in probe-based, real-time quantitative PCR. It is a premium one-step qPCR master mix that offers advanced capabilities including the option to amplify from crude or purified samples. It contains a hot-start reverse transcriptase, hot-start DNA polymerase, dNTPs, buffer components, and an enhancer solution which improves direct amplification from difficult samples.

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References

  1. Davialieva K, Kiprijanovska S, Plaseska-Karanfilska D. Fast, reliable and low cost user-developed protocol for detection, quantification and genotyping of hepatitis C virus. Virol Methods. 2014;196:104-112.
  2. Owczarzy R, You Y, Groth CL, et al. Stability and mismatch of Locked Nucleic Acid–DNA duplexes. Biochemistry. 2011;50(43):9352–9367.
  3. You Y, Moreira BG, Behlke MA, et al. Design of LNA probes that improve mismatch discrimination. Nucl Acid Res. 2006;34(8):e60.
  4. Johnson MP, Haupt LM, Griffiths LR.Locked nucleic acid (LNA) single nucleotide polymorphism (SNP) genotype analysis and validation using real-time PCR. Nucleic Acids Res. 2004;32(6):e55.
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