The Salis Lab has recently discovered a new mechanism, called Ribosome Drafting, that controls a mRNA's translation rate. Learn more about it in our latest publication: Espah Borujeni and Salis. Translation Initiation is Controlled by RNA Folding Kinetics via a Ribosome Drafting Mechanism, Journal of the American Chemical Society, 2016

Are you engineering riboswitches? See our latest NAR Breakthrough Article Automated physics-based design of riboswitches from diverse RNA aptamers, Nucleic Acid Research, 2016. Are you engineering bacterial operons? In non-model hosts? Then our latest published work should also interest you: Kushwaha and Salis, A Portable Expression Resource for Engineering Cross-species Genetic Circuits and Pathways, Nature Communications, 2015. and Tian and Salis, A Predictive Biophysical Model of Translational Coupling to Coordinate and Control Protein Expression in Bacterial Operons, Nucleic Acid Research, 2015

Did you design DNA using our algorithms? Please cite the appropriate articles: RBS Calculator v2.0 RBS Library Calculator Operon Calculator Riboswitch Calculator

Operon Calculator
Operon Examples
Design Job Title / Operon Name

Active Design Rules
Improve mRNA Stability Remove Undesired Translation Products
Remove Internal Promoters Remove Ribosomal Pause Sites
Remove Internal Terminators Remove Genetic Instability Sites
Remove Repetitive DNA

Synonymous Codon Usage Table
View Codon Table

Select a Promoter (enter a promoter sequence, or select one from the list)
Promoter Sequence:

Download Genbank

Protein Coding Sequence #1
CDS Name:
Target Translation Rate [?]
Target Translation Initiation Rate: select the desired rate of translation initiation on a proportional scale from 0.1 to 100,000 or more. (required)
:
Proportional scale (1 to 100,000+)
CDS Sequence (aa or nt) [?]
Protein Coding Sequence: enter a nucleotide or amino acid sequence (at least 50 bp or 17 aa) that encodes a polypeptide, using A/G/C/T/U or the 1-letter amino acid abbreviation. (required)
:

Protein Coding Sequence #2
CDS Name:
Target Translation Rate [?]
Target Translation Initiation Rate: select the desired rate of translation initiation on a proportional scale from 0.1 to 100,000 or more. (required)
:
Proportional scale (1 to 100,000+)
CDS Sequence (aa or nt) [?]
Protein Coding Sequence: enter a nucleotide or amino acid sequence (at least 50 bp or 17 aa) that encodes a polypeptide, using A/G/C/T/U or the 1-letter amino acid abbreviation. (required)
:

Protein Coding Sequence #3
CDS Name:
Target Translation Rate [?]
Target Translation Initiation Rate: select the desired rate of translation initiation on a proportional scale from 0.1 to 100,000 or more. (required)
:
Proportional scale (1 to 100,000+)
CDS Sequence (aa or nt) [?]
Protein Coding Sequence: enter a nucleotide or amino acid sequence (at least 50 bp or 17 aa) that encodes a polypeptide, using A/G/C/T/U or the 1-letter amino acid abbreviation. (required)
:
Add Protein CDS #4 Remove CDS #3

Select a Transcriptional Terminator (enter a sequence, or select one from the list)
Terminator Sequence:

Download Genbank

Select an Organism

Design Jobs: 1 queued, 7 currently running
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Have a Question? Our Documentation, Publications, and References may have your answer!
We gratefully acknowledge research funding from the Air Force Office of Scientific Research, the National Science Foundation, the Office of Naval Research, and an Amazon AWS Research Grant.
Computational resources are provided by the AWS Elastic Compute Cloud.