GenCRISPR gRNA & HDR Template Design Tools

Accelerate Precision Gene Editing

Resources » Bioinformatics Tools » GenCRISPR gRNA Design Tool

The GenCRISPR gRNA Design Tools makes guide RNA and HDR template design easy – Simply select your experiment type to get started.

Start Your Project

Knockout HDR Knock-in

Note: Selecting HDR knock-in will enable HDR template design options

Why choose our CRISPR design tools?

sgRNA design tool

Comprehensive species options, updated on-target and off-target scores
Designs target early exons to avoid truncated functional proteins
Higher transcript coverage
Ideal GC% for sgRNA
Validated KO% up to 97%, more detail>>
Design Tool User Guide

Knockout

HDR knock-in template design tool

Supports 1-1500bp deletions, 1bp-20kb insertions
Linear ssDNA / linear closed-end dsDNA / circular dsDNA formats available
CTS option and updated on-target and off-target scores increase editing efficiency
Multiple sequence check function helps avoid mistakes
Design Tool User Guide

HDR Knock-in

Easily design compatible
HDR templates & sgRNAs

Automatically optimize
homology arm design

Select from ssDNA
or dsDNA formats

Create an SNP or insert
any sequence up to 20 kb

Streamline your HDR
template & sgRNA orders

sgRNA/template pairs are
ranked by algorithm scores

Interactive Design Map

Paired sgRNA + HDR Templates

How to Design CRISPR Knock-in sgRNA + HDR Templates

Start Your Project

Knockout HDR Knock-in

Note: Selecting HDR knock-in will enable HDR template design options

30% off! Improve editing efficiency and reduce cost with our industry-leading sgRNA

Get 30% off any order of pegRNA (SC1518-CRISPR), EasyEdit sgRNA (SC1969), SafeEdit sgRNA (SC1968), or Cas12a crRNA (SC1518-CRISPR) using the code 30%OFFGUIDE. Up to 10 nmol per guide.
Available for both desalt & HPLC purified grade. Available for online & offline ordering.
From now until Dec 31^st 2024. Terms Apply.

*Promotions exclude customers in China, Japan, France, Spain, Norway, Switzerland, Italy, Sweden, Denmark, Finland, Portugal, Iceland, Monaco and some organizations. Valid for orders placed between Sep 3^rd and Dec 31^st 2024 only and cannot be applied to existing orders.

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Get 30% off all GenExact™ ssDNA! Achieve high knock-in efficiency and low cytotoxicity for less

Get 30% off any order of GenExact ssDNA (SC1999) using the code 30OFFGENEXACT. All lengths (up to 5 kb) and quantities (up to 100 mg) are eligible.
From now until Jan 31^st 2025. Terms Apply.*

*Promotions exclude customers in China, Japan, France, Spain, Norway, Switzerland, Italy, Sweden, Denmark, Finland, Portugal, Iceland, Monaco and some organizations. Valid for orders placed between Oct 21^rd 2024 and Jan 31^st 2025 only and cannot be applied to existing orders.

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Other CRISPR gRNA Design Tool And Database

Broad gRNA Design Tool for Any Sequence

sgRNA designed for any DNA sequence you input
Algorithm developed and validated by Feng Zhang lab, Broad Institute

Learn More

Broad sgRNA Database

Genome-wide gRNA databases for CRISPR editing and transcription activation
Pre-validated gRNA sequences design by the Broad Institute Ready for delivery; Full-Genome Coverage

Learn More