CRISPR Efficiency Predictor

WHAT IT DOES:

Predict guide RNA efficiency for SpCas9 based on sequence

features. The tool analyses:

  • GC content (optimal range varies by organism)

  • Position 1 and Position 20 base preferences

  • Homopolymer runs (penalises long repeats)

  • Poly‑T content (reduces efficiency)

  • Relative free energy

WHO IT'S FOR:

• Genetics students learning CRISPR guide design

• Researchers planning genome editing experiments

• Teachers demonstrating computational biology

• Anyone working with CRISPR-Cas9

HOW TO USE IT:

1. Enter a 20‑nt guide sequence (or use the example buttons)

2. Optionally include the NGG PAM sequence

3. Select your organism (human, mouse, plant, or bacteria)

4. Click "Predict Efficiency"

5. View your predicted efficiency score (0‑100%)

6. Review the feature breakdown and interpretation

7. Use the recommendation to guide your guide selection

Predict guide RNA efficiency for SpCas9 based on sequence features.

Guide RNA (20‑nt spacer)

Organism Human (optimal GC 40-60%) Mouse (optimal GC 40-60%) Plant (optimal GC 50-70%) Bacteria (optimal GC 30-50%)

Enter a 20‑nt guide sequence to predict efficiency.