We’ve updated our DECODED article library!

Get answers to your research questions, with articles sorted by application. Try it now »

Improved Primer Design With Batch Entry: The PrimerQuest® Tool

The PrimerQuest® Tool is IDT's foundational design tool for sequencing, endpoint PCR, and qPCR. 

Improved Primer and Probe Design:PrimerQuest

  • Robust overall criteria for primer/probe size, Tm, and %GC
  • Stringent checks for homodimer, homodimer 3′ end, heterodimer, and heterodimer 3′ end
  • Checks to ensure the probe does not have a 5′ end G 
  • Effective default parameters for GC Clamp, Poly X, and Pair Max Difference Tm
  • Primer3 engine updated to version 2.2.3 

Design Primers for up to 50 Sequences at a Time:

  • Submit up to 50 sequences to PrimerQuest software via Excel upload, a list of GenBank Accession IDs or RefSeq IDs, or manual entry in FASTA format

Simplified and Streamlined User Interface:PrimerQuest Results

  • Design primers for common experiment types with one click
  • Or, easily access customizable design parameter settings

Extensive Design Functions Including:

  • Greater solution variability
  • Added parameters for targeting exon junctions
  • Option to force primers to 3′ or 5′ ends (for applications like SNP detection)

What is PrimerQuest

PrimerQuest software is IDT’s foundational PCR and qPCR design tool and, hence, one of our most widely used SciTools® applications. As well as serving the primer design needs of customers who perform sequencing and endpoint PCR, it serves customers whose research involves qPCR in species other than human, mouse, and rat (for human, mouse, and rat, use the IDT PrimeTime® Predesigned qPCR Assay Database).