• CRISPR RNA Configurator

    Design a custom guide RNA for over 30 species with an easy-to-use interface and a choice of advanced options
    or
    Enter your own designs for ordering guide RNAs
    Choose from synthetic single guide RNA (sgRNA), crRNA, or lentiviral sgRNA

    Select an option below to get started!

    You may also choose from highly functional predesigned synthetic crRNA or lentiviral sgRNA to knockout your human or mouse gene target. Simply search for your gene.

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    Welcome

    The Dharmacon CRISPR RNA Configurator allows you to select CRISPR targeting sequences for incorporation into synthetic crRNAs and single guide RNAs (sgRNAs).

    Start by choosing a design option

    See the CRISPR RNA Configurator User Guide for detailed instructions.

    Select design option

    Input gene ID or gene symbol: design anywhere within gene
    Help Tooltip
    Generate guide RNA designs across the entire gene. Edit-R algorithm functionality scoring is not applied, only specificity.
    Input gene ID or gene symbol: specific cleavage location for HDR
    Help Tooltip
    Generate guide RNA designs in a specific region to facilitate HDR and knock-in experiments. Weighted functionality and specificity scoring is applied.
    Provide a DNA region for design
    Help Tooltip
    If you have any DNA sequence of interest and wish to generate a list of potential guide RNAs.
    Input my own guide RNA sequence

    In some cases, no design results are returned using the default parameters. Below are potential causes and suggestions for modifying the default settings to obtain designs:

    • Your gene may have non-overlapping transcripts. The default Configurator settings require targeting of all transcripts. In Advanced Options, specific transcripts may be Excluded or Allowed, rather than Required, to loosen the design criteria.
    • You might be using protein-coding gene settings with a noncoding gene target. Go back to the Design Purpose and select: Long non-coding RNA locus.
    • Your gene does not contain a NGG PAM. In Advanced Options, try including NAG PAM or uncheck “Require cuts to be in CDS”.
    • All potential target sites have GC percentages outside the default parameters. In Advanced Options, expand the GC Percentage settings.
    • Your gene does not contain target sites with more than two mismatches to PAM-adjacent sites in the selected genome. Deselect the Specificity Check. Keep in mind that the designs without Specificity Check are very likely to off-target.

    In some cases, no crRNA design results are returned using the default parameters. Below are examples of why the default settings may return no crRNA designs, and suggestions for obtaining designs:

    • Your DNA sequence does not contain a NGG PAM. In advanced options, try including NAG PAM.
    • Your DNA sequence has target sites with GC percentages outside the default parameters. In Advanced Options, expand the default GC Percentage settings.
    • Your DNA sequence only contains target sites that have possible off-targets to the selected genome. Expand the provided DNA sequence or deselect the Specificity Check.

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