domains / families / science / primer-design

primer-design

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Designs and audits PCR and RT-qPCR primers with Primer3, explicit thermodynamic conditions, reference-based off-target amplification searches, and traceable sequence coordinates. Use for designing primer pairs, checking existing primers, exon-junction or isoform-specific assays, variant masking, cloning tails, multiplex compatibility, and interpreting Primer-BLAST results. Includes bounded local in-silico PCR and BLAST screening; distinguishes computational candidates from experimentally validated assays.

When to use

• designing primer pairs
• checking existing primers
• exon-junction or isoform-specific assays
• variant masking
• cloning tails
• multiplex compatibility
• interpreting Primer-BLAST results
• bounded local in-silico PCR and BLAST screening

When not to use

• expression normalization
• experimental diagnostic validation
• guide-RNA design

Skill page

Source