CRISPR gDNA Design Software

Powerful software designed for CRISPR makes it quick and easy to find sites, design guide RNAs and analyze your editing results

Find CRISPR Sites

Locate CRISPR target sites and score them within a selected region of a genome or a stand alone gene sequence
Batch discovery and scoring of CRISPR sites on sequence lists or groups of sequence documents
Support for 3’ (Cas9) and 5’ (Cpf1) PAMs with customizable guide length and motif
Automatically identify optimal pairs of CRISPR sites

Evaluate Candidates

Assess sites quickly with innovative heatmap-style annotations based on your preferred scoring method
Tabular view of candidates allows sorting and filtering of gRNAs and easy export for ordering or further analysis
Evaluate on-target activity using the latest algorithms including Doench et al 2016

Specificity Scoring

Confidently pick the most specific guide RNA using scoring based on Zhang et al 2013
Check for off-interactions in regions outside the selected gene and in a database of additional sequences
Build a custom off-target database from your own specialized or proprietary data

Analyze CRISPR Editing Results

Easily align, cluster and visualize NGS reads from your CRISPR editing experiments using a purpose-built algorithm
Analyze the frequency of variants and their protein effects from your application of choice, including HDR, NHEJ and base editors

Tutorials

Finding CRISPR Sites – Learn how to find and annotate CRISPR sites in a sequence and check against a genome for off-target binding sites.

Analyzing CRISPR Editing – Learn how to analyze CRISPR editing results in Geneious Prime, including how to prepare your sequence files, set up the analysis and interpret the results.

More Geneious Prime Features

Molecular Cloning – View plasmid maps, automatically annotate vectors, find restriction sites; digest, ligate, and perform Golden Gate, Gibson, and Gateway cloning.

Primer Design – Design primers, find CRISPR sites, and optimize codons.

NGS Visualization and Analysis – Comprehensive analysis of data, including genome browser, contig visualization, SNP calling, and RNA-Seq expression analysis.

Alignment – Perform pairwise and multiple alignments of DNA or protein using trusted algorithms, including MAFFT and ClustalW.