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Summary: The web application PCR Suite is an extension of the primer design program Primer3. It allows the design of primer sets encompassing single nucleotide polymorphisms, all exons of a single gene, all open reading frames in a list of cDNAs or the creation of overlapping PCR products. Availability: www.eur.nl/fgg/kgen/primer
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Baren et al. (2004) studied this question.