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Primer-BLAST | A tool to design target-specific primers for polymerase chain reaction


Helps users design target-specific primers. Primer-BLAST is a web application that offers flexibility to accommodate different primer design. It incorporates a global alignment mechanism and is designed to be very sensitive in detecting potential amplification targets. Users can either design new primers or check the specificity of pre-existing primers. Finally, it has the capability to place primers based on exon/intron boundaries and Single-Nucleotide Polymorphism (SNP) locations.

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Primer-BLAST classification

Primer-BLAST specifications

Unique identifier:
Restrictions to use:
Input format:
Computer skills:
Web user interface
Input data:
Accession, gi, or sequence
Programming languages:

Primer-BLAST support


  • Jian Ye <>


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National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA; Neuroscience and Behavioral Disorders Program, Duke-NUS Graduate Medical School, Singapore, Singapore

Funding source(s)

Supported by the Intramural Research Program of the NIH, National Library of Medicine, the Singapore Ministry of Health and the Agency for Science, Technology, and Research.

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