Custom CRISPR guide design and ordering webtools
Design CRISPR experiments with confidence - from first edit to precision engineering
Free and easy-to-use online design tools for almost any CRISPR application. Design guide RNAs for gene knockout or site-specific editing in more than 30 species, order specific guide RNA sequences or for alternative Cas9 species, design HDR donor sequences, and order base editing guide RNAs with our extensive web ordering tools powered by trusted CRISPR algorithms.
CRISPR custom webtools
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Edit-R CRISPR design tool
Design gRNAs using our proprietary algorithm for knockout or custom site-specific guides that target user-defined regions across 30+ species and multiple nucleases. -
Custom CRISPR gRNA
Order exact desired gRNA sequences for any Cas9 species or editing technology by inputting your own spacer and/or scaffold sequence. -
CRISPR DNA region designer
Design and order gRNAs to a custom inputted DNA region with a specificity check supported for 30+ species. -
HDR donor designer
Design ssDNA oligo donors (≤ 150 nt) or plasmid DNA donors for large insertions (mKate2, EGFP, or custom sequence). -
Custom Pin-point™ base editing sgRNAs
Design and order custom base editing sgRNAs for point mutation or gene knockout. -
Other custom guide RNA needs
Don’t see what you need? Connect with our scientific support team for many more options for oligo customization.
Why choose Dharmacon™ CRISPR design tools?
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Flexible for every skill level
Whether you're running your first knockout experiment or engineering complex models, we have the web ordering tool for your research.
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Validated algorithms, trusted results
Our design engines incorporate on-target scoring, off-target prediction, and experimental validation data to help you select the most effective guides for your target.
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HDR and base editing design tools are also available
Go beyond simple knockouts.
- Design homology arms for precise insertions
- Design Pin-point base edits with context-aware sgRNA selection
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Efficient ordering
Export designs directly to your cart.
- Custom sgRNAs, crRNAs, HDR donors and primers, and Pin-point base editing sgRNAs ship fast and are all industry-leading quality.
Overview of the Dharmacon Reagents CRISPR webtools
CRISPR Design Tool
Design gRNAs for straightforward gene knockout and/or custom site-specific guides that target user-defined regions.
Best for researchers starting with gene knockout or needing targeted guide design with minimal complexity.
Guided workflow walks you through gRNA selection. Uses the proprietary Dharmacon Edit-R algorithm for guide design.
Custom CRISPR gRNA
Order exact desired gRNA sequences for any Cas9 species or for use with Pin-point base editing mRNAs.
Ideal when you know your target sequence and need a custom guide for a specific Cas9 variant or base editing application.
CRISPR DNA Region Designer
Order gRNAs to a specific DNA sequence or region with specificity calculations provided.
Perfect for targeting custom genomic regions with built-in off-target analysis to support confident guide selection.
HDR Donor Designer
Design ssDNA oligo donors (≤150 nt) or plasmid DNA donors for large insertions (mKate2, EGFP, or custom sequence).
Supports precise knock-in experiments with flexible donor formats for small edits and large cargo insertions alike.
Custom Pin-point™ Base Editing sgRNAs
Design and order custom sgRNAs for use with Pin-point base editing systems.
Enables scarless, single-nucleotide edits without double-strand breaks - optimized for precision disease modeling and functional studies.
Tip: Not sure which tool to use? Start with the CRISPR Design Tool for standard knockouts, or contact our specialists for guidance on your desired applications.
Featured application notes
Knock-in a SNP alteration in iPSCs - Application Note
Knock-in a fluorescent tag into iPSCs using Edit-R reagents - Application Note
Optimized HDR-mediated fluorescent protein knock-in in K-562 cells - Application Note
Fluorescent tagging of an endogenous gene by homology-directed repair - Application Note
Homology-directed repair with Dharmacon Edit-R CRISPR-Cas9 reagents and single-stranded DNA oligos - Application Note
Featured technical documents
Safety data sheets
North American standard safety data sheet for RNA oligonucleotides.
Safety data sheets
European Union standard safety data sheet for RNA oligonucleotides.
Protocol
Basic siRNA resuspension protocol
Product Bulletin
Synthetic RNA stability
The functionality of synthetic RNA tested under various storage conditions
Helpful resources and tools
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