2018-07-08 20:40:22 +02:00
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PerlPrimer is a free, open-source GUI application written in Perl
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that designs primers for standard PCR, bisulphite PCR, real-time PCR
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(QPCR) and sequencing. It aims to automate and simplify the process
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of primer design.
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2011-09-04 17:59:26 +02:00
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PerlPrimer's current features include the following:
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- Calculation of possible primer-dimers
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2018-07-08 20:40:22 +02:00
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- Retrieval of genomic or cDNA sequences from Ensembl (including both
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2011-09-04 17:59:26 +02:00
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sequences automatically for QPCR)
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2018-07-08 20:40:22 +02:00
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- Ability to BLAST search primers using the NCBI server or a local
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2011-09-04 17:59:26 +02:00
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server
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2018-07-08 20:40:22 +02:00
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- Results can be saved or optionally exported in a tab-delimited
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2011-09-04 17:59:26 +02:00
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format that is compatible with most spreadsheet applications.
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- ORF and CpG island detection algorithms
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2018-07-08 20:40:22 +02:00
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- Ability to add cloning sequences to primers, automatically adjusted
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2011-09-04 17:59:26 +02:00
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to be in-frame
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2018-07-08 20:40:22 +02:00
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- QPCR primer design without manual intron-exon boundary entry
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2011-09-04 17:59:26 +02:00
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2014-02-18 01:59:53 +01:00
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An optional run-time dependency is spidey, for Real Time PCR.
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2011-09-04 17:59:26 +02:00
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For details and citation:
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2014-02-18 01:59:53 +01:00
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Marshall OJ. PerlPrimer: cross-platform, graphical primer design for
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standard, bisulphite and real-time PCR. Bioinformatics 2004
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2011-09-04 17:59:26 +02:00
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20(15):2471-2472
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