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Primo Oligo 1.0 --- Oligo/Primer Calculator           Click here for PCR primer design tools.
Applet runs on Java-enabled browsers
PC: Internet Explorer 5.5 or higher and Netscape 4.08 or higher
Mac: Internet Explorer 5.0, IE5.1.4 or higher (IE5.1 will not work because of a bug.)
Need to raise a better antibody?
Please use online Abie Pro 3.0 for
peptide antibody design.
The Electronic Protocol Book Table of contents BioToolKit 300 Download Trials
     An electronic protocol book with 500 protocols and 100 recipes. A great quick and practical reference for bench scientists as well as for new students.   Get A Copy      A collection of tools frequently used by bench biomedical scientists, ranging from centrifugation force conversion, molecular weight, OD, recipe calculators, to clinical calculators. Include all Primo 3.4, Abie 3.0, Heatmap Viewer, MicroHelper, Godlist Manager, label printing, and grade book.   More info


Primo Oligo 1.0 --- Oligo/Primer Calculator

How to use Primo Oligo 1.0 Oligo/Primer Calculator (beta-testing)

Melting temperature and molecular weight calculations

  • Input your primer sequences by copy and paste. Click on the "Calculate" button to start. Numbers and blank spaces will be ignored. Degenerate nucleotide codes can be accepted.

    For multiple primers, please keep each in a separate line. After clicking on "Calculate", click on ">>" or "<<" to view the properties of each primer.

  • The default melting temperature calculation uses the "Nearest neighbor" model and commonly used salt and primer concentrations for PCR reactions. Users have the options to change these setting.
  • If your primer sequence is not known, MW can be estimated using primer length. Click on "Reset", input primer length, and then click on "Calculate."

    Making primer stocks from dried (lyophilized) oligos

  • Final Concentration = Original Amount / Stock volume.

    Molecular weight and extinction coefficient may or may not be needed for this calculation. When needed, you may input your own values or calculate from primer sequences.

    Making stock dilutions

  • You may calculate original concentration, dilution factor, or final stock concentration. Again molecular weight and extinction coefficient may or may not be needed for this calculation. When needed, you may input your own values or calculate from primer sequences.
  • For dilutions, you have two choices, one is to calculate the fold of dilutions and the other is to calculate the dilutant volume (not the total volume!)

    Thanks for using Primo Oligo 1.0! Please let us know your suggestions and comments.

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