In silico PCR used is used to calculate theoretical polymerase chain reaction (PCR) results using a given set of primers (probes) to amplify DNA sequences.
UGENE provides the In silico PCR is available feature only for nucleic sequences. To use it in UGENE open a DNA sequence and go to the In Silico PCR tab of the Options Panel:
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<center> <br> <img src="/wiki/download/attachments/13435069/In Silico PCR.png"/> </br> </center> |
Here There are the following parameters are available:
Forward primer - forward primer.
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Maximum product - maximum size of amplified regionsequence.
Type two primers for running In Silico PCR. Note, iIf the primers pair is invalid for running the PCR process then the warning is shown. For Click the Reverse-complement button for making a primer sequence reverse-complement click the Reverse-complement button:
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<center> <br> <img src="/wiki/download/attachments/13435069/In Silico PCR_1.png"/> </br> </center> |
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When you run the process, the predicted PCR products appear in the products table.
There are three columns in the table:
- region of product in the sequence
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- product length
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- preferred annealing
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- temperature
Click the product for navigating to its region in the sequence.
Click the Extract product(s) button for exporting a product(s) in a file . Or or use double click for that.
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<center> <br> <img src="/wiki/download/attachments/13435069/In Silico PCR_2.png"/> </br> </center> |
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