Server at Davidson College
Prime Time Primer Designer
A Golden Gate Assembly Tool
|*Starting location of cut:|
|*Ending location of cut:|
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"RNAstructure: software for RNA secondary structure prediction and analysis."
J.S. Reuter and D.H. Mathews.
BMC Bioinformatics, 11:129. (2010).
"IDT SciTools: a suite for analysis and design of nucleic acid oligomers"
Richard Owczarzy, Andrey V. Tataurov, Yihe Wu, Jeffrey A. Manthey, Kyle A. McQuisten, Hakeem G. Almabrazi, Kent F. Pedersen, Yuan Lin, Justin Garretson, Neil O. McEntaggart, Chris A. Sailor, Robert B. Dawson, Andrew S. Peek
Nucleic Acids Res. 2008 July 1; 36(Web Server issue): W163–W169. Published online 2008 April 25.
Insert the text of the plasmid sequence. Only plain-text is supported. New-line characters will be automatically deleted.
Insert the sequence you wish to insert. Only plain-text is supported. New-line characters will be automatically deleted.
Select the restriction enzyme you will use from the drop down menu. Currently, BsaI is the only supported restriction enzyme. The restriction enzyme is used to generate the specific tag (i.e. GGTCTC).
Insert the desired melting temperature. The default value is 50.0°C. If two primers are greater than 5.0°C apart, the one with the lower melting temperature will be elongated until they are within 5°C.
Insert the desired primer length. Default value is 20. If melting temperatures differ, the primer length may be altered (elongated) to make the melting temperatures more similar.
Insert location of the start of the cut. This index should be the last base pair that you want included. Indices start at "1"
Insert location of the end of the cut. This index should be the first base pair that you want included. Indices start at "1"
Choose the two sticky ends you wish to use. Note that only one letter and one number may be selected.
That's it! Submit and collect your results.