AI-Powered CRISPR gRNA Design Tool Coming Soon
What is this tool?
This AI-powered CRISPR guide RNA design tool supports Cas9, Cas12a, and base editors with on-target efficiency prediction using Azimuth and DeepCRISPR scoring. It is designed for genome editing researchers who need validated guide RNAs with comprehensive off-target analysis.
Design guide RNAs for Cas9, Cas12a, and base editors with on-target efficiency prediction and genome-wide off-target scoring. VigyanLLM combines Azimuth and DeepCRISPR models with thermodynamic validation for synthesis-ready gRNA output.
Read CRISPR Design Guide →Comprehensive guide to CRISPR gRNA design, on-target efficiency, and off-target minimisation.
Last updated: July 2026 · Reviewed by VigyanLLM Research Team
CRISPR gRNA Design Capabilities
Cas9 gRNA Design
Design 20 nt guide RNAs with NGG PAM recognition. On-target efficiency scoring, off-target CFD scoring, and synthesis-ready oligo output.
- SpCas9, SaCas9, StCas9 variants
- NGG, NGA, NAG PAM support
- Azimuth 2.0 on-target scoring
- CFD off-target scoring (3-mismatch)
Cas12a (Cpf1) Design
Design 23-25 nt crRNAs with TTTV PAM recognition for Cas12a (Cpf1) nucleases. Supports both wild-type and enhanced variants.
- AsCas12a and LbCas12a
- TTTV PAM recognition
- 5' TTTV-anchored design
- DeepCRISPR on-target score
Base Editor Guides
Design guides for cytosine and adenine base editors with editing window placement optimisation and bystander editing prediction.
- CBE and ABE support
- Editing window (positions 4-8)
- Bystander editing prediction
- Protospacer-adjacent motif check
Off-Target Analysis
Genome-wide off-target prediction with CFD scores, mismatch tolerance, and exonic/intronic target classification.
- Genome-wide BLAST search
- CFD and MIT scoring
- Exonic, intronic, intergenic classification
- Top 10 off-target report
Learn CRISPR gRNA Design
Read our comprehensive guide covering Cas9, Cas12a, and base editor guide design with efficiency prediction and off-target minimisation.
Read CRISPR Guide →CRISPR Guide RNA Design Tool — Inputs & Outputs
VigyanLLM is an autonomous CRISPR guide RNA design tool that utilizes AI algorithms for CRISPR guide RNA identification and off-target scoring. Unlike standard web CRISPR tools, it runs entirely on your local infrastructure via Docker, enabling genome-scale CFD scoring without transferring proprietary genomic data to external servers.
| Input | Output |
|---|---|
| Target DNA sequence (FASTA format) | Ranked guide RNA sequences with PAM annotation |
| Target gene symbol or genomic locus | Doench 2016 on-target efficiency scores |
| Reference genome (for off-target analysis) | CFD off-target mismatch scores against genome database |
Frequently Asked Questions About CRISPR Guide RNA Analysis
Everything you need to know about using this tool
Is the CRISPR analysis tool free?
The CRISPR guide RNA analysis tool offers 5 free analyses per user. Each analysis uses AI models for guide scoring and off-target prediction. After 5 free uses, a subscription is required.
What does the CRISPR tool do?
It designs and scores CRISPR guide RNAs (gRNAs) for Cas9, Cas12, and Cas13 systems, predicting on-target efficiency and potential off-target effects across the genome.
What scoring models are used?
The tool uses machine learning models trained on validated CRISPR datasets for on-target activity prediction and genome-wide off-target specificity scoring.
Do I need an account?
No, you can use CRISPR analysis without an account for your first 5 analyses. Account creation enables usage tracking.
How do I subscribe?
Subscribe through VPrime 2.0 starting at ₹99/day. Monthly plans from ₹2,499/month are available for labs and core facilities.