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FactorForge CDS Design Review

Reproducible plant CDS design and sequence review

📥 Sequence Input

or

Sequence Input Area

0 bp GC: 0%

🕒 Recent Designs

No recent history

🛡️ All history is stored locally in your browser.

⚙️ Optimization Settings

Design Objective

Current default first; alternatives and not-enabled objectives are disclosed separately.

current default
Show alternative implemented objectives
Show experimental objectives not enabled
Codon Reference

Current production default only; comparator assets are retained for provenance and controlled analysis, not public selection.

current default

Current default: NbeV1.1 HC CDS-derived i NbeV1.1 high-confidence CDS-derived codon usage is the configured in-silico software default for N. benthamiana. It is not experimental validation or comparative biological-performance evidence.

Production software baseline for N. benthamiana; public reference overrides remain disabled.

Selected

Other packaged codon-reference assets are retained for provenance, reproducibility, and controlled internal sensitivity analysis only. They are not shown as public product choices, and public API/UI reference overrides remain unsupported.

Advanced Settings

Use the same integer to reproduce optimizer candidate selection.

Type IIS Enzymes to Avoid

Selected presets are merged with custom sites and removed by synonymous substitution where possible.

Sites will be removed from CDS by synonymous substitution where possible.

Acceptance Criteria

Required failures produce FAIL; preferred warnings produce CONDITIONAL PASS.

📊 Optimization Results

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Ready to design.

Optimization will unlock:

📊 Visualization

Interactive GC Distribution Chart

📈 Comparison

Pre vs Post Optimization Metrics

🕒 Tracking

Local History & Session Sync

🧬 Sequence Checks

Live DNA Sequence Scrutiny

⚠ This tool produces in-silico CDS design candidates and pre-synthesis review artifacts only. Review and wet-lab testing are required before relying on any design in experiments. ⚠ In-silico metrics do not demonstrate or guarantee expression, yield, synthesis acceptance, folding, glycosylation, regulatory approval, or biological activity. ⚠ Users are responsible for verifying intellectual property rights and regulatory compliance for their sequences. ℹ Anonymous usage statistics (design options and aggregate result metrics) are collected to improve this tool. Submitted sequences are not logged or stored. ℹ Public wet-lab feedback must be coarse and non-confidential. Do not submit raw sequences, construct IDs, target identities, exact process parameters, patient data, or partner/customer confidential information.
GitHub Share Wet-lab Results (GitHub) Release Notes