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Custom RNA Synthesis

Single-strand RNA synthesis customization beyond the industry standards

Revvity's Dharmacon™ custom RNA synthesis goes beyond industry standards, offering unparalleled flexibility and capabilities. Researchers can synthesize long RNA oligos, highly modified RNA molecules, and unique RNA structures. A wide range of standard modification like phosphothioate linkages, psudouridine and fluorescent labels are available directly on the web, along with theraputically relevant modification like GalNAc clusters and 2'-O-methyl bases.

Our RNA synthesis is powered by our proprietary 2'-ACE chemistry that allows delivery of RNA in a protected form for enhanced stability and versatility in chemical modification. Purification options like HPLC and PAGE ensure high quality for demanding applications. Seamless online ordering with instant pricing and delivery estimates makes custom RNA synthesis easy, and for specialized needs beyond the online catalog, our scientific support team is ready to develop a custom solution.

RNA synthesis - Single stranded RNA and antisense oligonucleotides

Why choose Dharmacon custom RNA?

Our RNA synthesis platform is built for researchers who need more - more flexibility, more precision, and more options than standard offerings provide. 

Our capabilities include:

  • Long RNAs:

    Up to 140 bases long or more are supported to enable emerging technologies.

  • Flexible modifications:

    Choose from phosphorothioate linkages, 2'-O-methyl, 2'-fluoro, conjugation handles and fluorescent labels, and more options to enhance stability and function. A full list of modifications available on our web ordering tools can be found at our Bases and Modifications page.

  • Individual or batch ordering:

    Order individual RNAs or place bulk orders with consistent characteristics (scale, purification, and modifications).

  • Bulk production:

    Larger synthesis scales for in vivo and preclinical development.

  • Custom phosphoramidites:

    Including modified bases not commercially available

  • Proven expertise:

    Backed by 30+ years of oligo synthesis experience and trusted by researchers worldwide.

  • Confident results:

    All oligos made by the Dharmacon Reagents team are examined by mass spectrometry. Additionally, ultra-HPLC analytical data and Mass-spec traces are available on request as an additional service.

  • Custom support available:

    Request modifications or customized purification and processing beyond the standard catalog or get design guidance from our team. Contact our Scientfic Support team today.

  • Extensive modification options

    Standard modifications offered include:

    • Modified bases such as 2'-O-methyl bases

    • Pseudouridine (~U)

    • Fluorescent labels and quenchers

    • Terminal linkers and functional groups for conjugation chemistries

    • Phosphorothioate backbone modifications (*)

    Oligo labeling options:

    • Labeling modifications (internal and/or terminal)
      • Fluorescent, dye, quencher, chromogen modifications
    • Terminal Modifications
      • Non-fluorescent terminal modifications, such as cholesterol or biotin, or chemical groups for conjugation.
    • Terminal linkers for modifications such as PEG, carbon linkers, etc
    • Multiple labels within a single oligo - not limited by position
    • Scalable to gram quantities for dye labeled oligos

    View our web-tool enabled Bases and Modifications

    NOTE: Many other modifications are available upon request. The online ordering tools only include a subset of common modifications. For assistance please contact Scientific Support. 

     

  • RNA length and use
    Dharmacon RNA oligonucleotides are routinely synthesized at 80 nt and longer with consistency and superior levels of purity.
    purified 99 mer

     

    The ability to synthesize longer oligos is highly sequence-dependent due to the potential for secondary structure formation and the inherent difficulty for chemical synthesis of certain sequences.

    Reduced overall yield is expected as oligo length increases.

    How today's scientists use RNA oligos
    Single-strand RNA may be used for Applications for RNA may involve:
    Custom microRNA inhibitors in vitro or in vivo applications
    Aptamers Virology
    Ribozymes miRNA functional studies
    tRNAs X-ray crystallography, NMR
    FISH/ISH probes RNAi
    FRET probes Transcription / translation
    RNA/DNA hybrids Assay development
    Custom RNA duplexes Microarrays
    Dicer substrates RNA-mediated cellular mechanisms
    Antisense oligos RNA/protein interactions
    Enzyme substrates RNA chemistry

     

  • 2'-ACE Chemistry - A unique advantage
    Our proprietary 2'-ACE chemistry is the only platform that offers delivery of RNA in its 2'-protected form - a capability no other provider can match.

    Benefits of 2'-protected RNA:

    • Perform additional chemical manipulations prior to deprotection
    • Enhanced nuclease resistance in the final product*
    • Water-soluble and stable for long-term storage
    • Protecting groups removed easily under mildly acidic conditions

    Read more on our application page.

    Deprotection options

    Protected RNA must be deprotected before use. You choose how:

    Option Details Cost
    Deprotect in your lab Simple 30-minute procedure; deprotection buffer included with order No charge (uncheck 2’-Deprotect / Desalt box when checking out)
    Deprotecting prior to shipping (default) Receive your oligo ready-to-use after resuspension; select "2'-Deprotect / Desalt" at checkout Small processing fee
  • Select the purification and processing required for your application.

    We routinely achieve 80-85% purity for unmodified single-strand RNA <35 nt. However, purification may be recommended when chemically synthesized RNA oligonucleotides are:

    • Especially long (>40-50 nt in length)
    • Chemically modified at the 3' end or internally
    • Dually labeled
    • Intended for use in sensitive assays or in vivo applications

    Please contact Scientific Support for information regarding recommendations for purification or purity estimates for unpurified material.

    Purification and processing options for RNA

      Unprocessed Desalt/Deprotect PAGE HPLC In vivo In vivo HPLC
    Deprotected   * *
    Desalted   * *
    Endotoxin tested        
    Sodium counter-ion exchange        
    Recommended for 3' or dually labeled RNA      
    Recommended for in vivo use        

    * PAGE and HPLC purification options can be requested with or without Desalt / Deprotect

    Description of RNA Processing Terms
    • Unprocessed: The RNA oligo has not undergone any post-synthesis processing; it is not desalted, deprotected, or purified.
    • Desalted: The RNA oligo has been desalted by either ethanol precipitation or C18 column desalting; column desalting is typically employed for PAGE-purified RNA and RNA <10 nt in length.
    • Deprotected: The 2'-ACE protecting groups of the RNA bases have been removed (deprotected).
    • PAGE: The RNA oligo has been purified by polyacrylamide gel electrophoresis.
    • HPLC: The RNA oligo has undergone ion exchange high performance liquid chromatography for purification.
    • In vivo: The RNA oligo has been processed by counter-ion (Na+) exchange, desalting, sterile filtration, and endotoxin testing.
    • In vivo HPLC: The RNA oligo has undergone both in vivo processing as well as HPLC purification.
  • Ordering guide and webtools
    How to order video

    Watch our short video on how-to-use the custom single strand RNA synthesis tool

    Watch now

    Need help entering your sequence using our oligo shortcode?

    Try using our Dharmacon Oligo Sequence Converter. 

    Learn more

    Ordering and calculation tools

    Access our Ordering and calculation tools page for convenient webtools to support everything from designing your own siRNA or CRISPR guide against any organism to analyzing your PCR primers.

    Learn more

  • Revvity's adherence with the United States Framework For Nucleic Acid Synthesis Screening

    Revvity's Dharmacon Reagents team adheres to the guidelines in the United States Framework For Nucleic Acid Synthesis. For more information please see our self-attestation.

Featured technical documents

Protocol

Reverse phase cartridge desalting of RNA oligonucleotides Protocol for desalting RNA oligos using reverse phase cartridges, including protocol for cartridge equilibration, washing, and eluting from cartridge.

Protocol

Basic siRNA resuspension siRNA resuspension protocol.

Protocol

Deprotection of 2'-ACE protected RNA How to deprotect 2'-ACE protected RNA

Protocol

Ethanol precipitation of RNA oligonucleotides This protocol is for Ethanol Precipitation of RNA Oligonucleotides.

Protocol

TCEP reaction for thiol-modified siRNA/RNA oligonucleotides Protocol to deprotect (reduce) oxidized thiol-modified siRNA and RNA oligonucleotides.

Product insert

Option in vivo and in vivo HPLC custom siRNA synthesis Dharmacon option in vivo: The siRNA is shipped as a lyophilized pellet in the 2'- deprotected and duplexed form.

Product insert

Option A1 custom siRNA synthesis Option A1 custom siRNA synthesis product insert, containing contents, protocol, shipping and storage conditions, handling precautions, etc.

Product insert

Option A4 custom siRNA synthesis Option A4 custom siRNA synthesis product insert, containing contents, protocol, shipping and storage conditions, handling precautions, etc.

Recommended reading

Publication list highlighting Dharmacon reagent development and collaborations across CRISPR-Cas9, RNAi and oligo synthesis.

Safety data sheets

RNA Oligonucleotide

Safety data sheets

RNA Oligonucleotide

Application notes

2’-ACE RNA synthesis chemistry DharmaconTM 2'-ACE RNA synthesis chemistry

How can we help you?

We are here to answer your questions.

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