Optimal & Random mRNA Sequence Calculator
What does it do?
Finds the optimal mRNA sequence and a Random mRNA sequence based on codon usage frequencies and returns an alignment of the two.
How does the Optimal and Random mRNA Sequence Calculator work?
- The website user enters an
amino acid sequence using the one letter abbreviations along with a
codon usage table from The Codon Usage Database website.
- The calculator then returns
the Optimal mRNA sequence and a Randomly generated mRNA sequence
determined by the frequencies in the inputted codon usage
What are the Optimal mRNA sequence and Randomly mRNA sequence?
- Optimal mRNA sequence: always chooses the codon with the maximum
frequency in the codon usage table.
- Random mRNA sequence: uses the frequencies from the codon usage table
to represent the probability that a certain codon will be selected.
How do I get a Codon Usage Table from the Codon Usage Database?
To get the codon usage table go to Codon
- Select the organism you want the codon usage table for.
- Highlight and copy the usage table like is done in the image below.
- Paste the table into the codon usage table form on the previous
page. Like is done below.
- Enter the amino acid sequence in the next box.
- Then press submit.
What does the error message mean?
If you received an error message and were told to visit this page
most likely one of two things is wrong with your inputs, either:
- The Amino Acid Sequence you inputted contains illegal characters.
Double check that all characters in the inputted amino acid sequence
are actual one letter abbreviations.
- You may have not copied the entire codon usage table from The
Codon Usage Database. Read the instructions above about how to
properly get the codon usage table.
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