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Nucleic Acids Research Advance Access published online on May 7, 2007
Nucleic Acids Research, doi:10.1093/nar/gkm306
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© 2007 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Primer3Plus, an enhanced web interface to Primer3

Andreas Untergasser1,*, Harm Nijveen2, Xiangyu Rao2, Ton Bisseling1, René Geurts1 and Jack A.M. Leunissen2

1Laboratory of Molecular Biology and 2Laboratory of Bioinformatics, Department of Plant Science, Wageningen University, Dreijenlaan 3, 6703HA, Wageningen, The Netherlands

*To whom correspondente should be addressed. Tel: +31 317 482037; Fax: +31 317 483584; Email: andreas{at}untergasser.de

Received January 31, 2007. Revised April 2, 2007. Accepted April 4, 2007.

Here we present Primer3Plus, a new web interface to the popular Primer3 primer design program as an enhanced alternative for the CGI- scripts that come with Primer3. Primer3 consists of a command line program and a web interface. The web interface is one large form showing all of the possible options. This makes the interface powerful, but at the same time confusing for occasional users. Primer3Plus provides an intuitive user interface using present-day web technologies and has been developed in close collaboration with molecular biologists and technicians regularly designing primers. It focuses on the task at hand, and hides detailed settings from the user until these are needed. We also added functionality to automate specific tasks like designing primers for cloning or step-wise sequencing. Settings and designed primer sequences can be stored locally for later use. Primer3Plus supports a range of common sequence formats, such as FASTA. Finally, primers selected by Primer3Plus can be sent to an order form, allowing tight integration into laboratory ordering systems. Moreover, the open architecture of Primer3Plus allows easy expansion or integration of external software packages. The Primer3Plus Perl source code is available under GPL license from SourceForge. Primer3Plus is available at http://www.bioinformatics.nl/primer3plus.

The authors wish it to be known that, in their option, the first two authors should be regarded as joint First Authors.


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