![]() ![]() Codons chosen by the tool are shown in blue. Codon view for Manual Optimization. The Manual Optimization screen splits each codon into an individual box. Order sequence using the blue Order item button.įigure 3.To manually optimize your original sequence, click on Map Codons Only and then Manual Optimization (Figure 2) to change codon usage for any amino acid or stop codon in your sequence (Figure 3).(Optional available only for amino acid sequences) Click on Manual Optimization (Figure 2) to change codon usage for any amino acid or stop codon in your sequence (Figure 3).Note: multiple clicks on the Optimize button will generate slightly different sequences. Click on Optimize (lower right orange button).Obtain results in one of the following ways:.You can then edit the sequence by changing the reading frame shift and by indicating start/stop codons. (Optional) To designate a specific part of the sequence for optimization, click on Highlight Codons.Paste in your sequence (bulk entry is also available in a variety of input formats).Select your Organism for expression from the pulldown list (if working with cell lines, select animal or plant origin).Select the desired Product Type of either gBlocks™ Gene Fragments, Gene, Megamer™ ssDNA Fragments, eBlocks™ Gene Fragments,or gBlocks HiFi Gene Fragments to set the optimization rules that the tool will use.Select the Sequence Type by clicking either DNA Bases or Amino Acids.Use of the Codon Optimization Tool is straightforward (see Figure 1 for a screen shot of the tool interface): The tool also makes it easy to adjust a sequence that has difficult secondary structure, a repetitive motif, or high/low GC content for compatibility with IDT manufacturing requirements for single-stranded and double-stranded gene fragments. The main design consideration is to optimize a DNA or protein sequence from one host organism for expression in another by re‑assigning codon usage. ![]() The IDT Codon Optimization Tool simplifies designing synthetic genes and single-stranded or double-stranded DNA fragments for expression in a variety of organisms. ![]() Target Capture Probe Design & Ordering Tool.Library Concentration Conversion Calculator.Alt-R Predesigned Cas9 crRNA Selection Tool.SYBR Green dye assay and PrimeTime probe assays.PCR Allele Competitive Extension (PACE) genotyping.Drug target identification via CRISPR screening. ![]()
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