BioPHP: PHP for Biocomputing
Find Restriction Sites - Parameter Page
Instructions:

Enter a source DNA sequence in GenBank format (see example below). Next, select a target DNA fragment by giving its start and end positions, and specify the length of the pattern recognized by your desired restriction enzyme(s). Click on the SUBMIT button.

A second page (the Results Page) will appear with a list of candidate restriction enzymes that enclose the target fragment DNA. When you click on its name, a third page (the Result Details Page) will appear showing the GenBank sequence with the restriction sites in RED and the target DNA fragment in BLUE. See also IMPORTANT NOTES.

Source DNA Sequence:

Target DNA Fragment:

Start Position:

End Position:

Restriction Enzyme:

Length of Recognized Pattern:

IMPORTANT NOTES:

  1. If you want to try a different set of parameters, you must go to the third page (the Result Details) and click on the button labeled 'Parameter Page'. Clicking on your browser's BACK button will not always work (script will still use your old parameters).
  2. Actually, you can enter a sequence in free form (e.g. directly type in a sequence of A, G, T, and C's like ATGTCGATC). The second page (Results Page) will still give you accurate results. However, the GenePHP GenBank Sequence Viewer in the third page (Result Details page) will not work properly. For best results, enter a sequence in GenBank format, strictly following indentations, spacings, etc.

Example: First 1000 bases from the SARS virus
(You may copy and paste this into the large box above. Pls include spaces before '1' in the first line.)

Source DNA Sequence:

 

 


Copyright © 2003 by Sergio Gregorio, Jr.
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