Standard DNA oligonucleotides

Our standard custom DNA oligonucleotides are synthesized on a highly automated, computer-controlled system using cyanoethyl phosphoramidite chemistry and subject to rigorous quality control procedures, just like our Value Oligos.

While our Value Oligo format represents the most economical and fastest way to order (25 or 50 nmol in tube formats with a range of purification options to suit your applications), if your research demands a scale larger than 50 nmol, a different format, or requires 5′, 3′, or internal modifications, then our standard DNA oligo formats have you covered (Table 1).

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Plate formats

Our custom DNA Oligos are available at 25 nmol, 50 nmol, 200 nmol, 1 μmol and 10 μmol scales. Learn more about minimum yield guarantees and to see explanations about estimated yields.

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Synthesis scales

In addition to tubes, our custom DNA Oligos are available in 96- or 384-well plate formats, with the same purification, synthesis scale, plate type and volume, shipping medium, and buffer type for the entire order.

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Routine 5′ modifications include biotin, phosphate, and primary amine. In addition to modifications with fluorescent dyes, such as fluorescein, HEX, and TET, we offer a wide range of Molecular Probes dye modifications, such as Alexa Fluor and BODIPY dyes. For a full list of available 5′, 3′, or internal modifications, see Oligo Configuration Options.

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Table 1. Which kind of oligos are right for me?

Value Oligos Standard Oligos
  • Price is calculated per oligo
  • Price is calculated per base
  • Length: 5–40 mers
  • Scale: 25–50 nmol
  • Length: 5–100 mers
  • Scale: from 25 nmol to 10 μmol
  • Not available with modifications
  • 5′, internal, and 3′ modifications are available
  • Eligible for standard and next-day delivery
  • Standard delivery only

Choosing the right DNA oligos for your application

Oligonucleotides are the starting point for many of today’s biology research, drug discovery and diagnostics applications. These highly technical applications demand high-quality oligonucleotides for success. Our custom DNA oligos are synthesized on a highly automated, computer-controlled system using standard cyano-ethyl phosphoramidite chemistry. Coupling efficiencies are monitored throughout synthesis of each oligonucleotide by trityl analysis, ensuring the quality of the process, not just the end product. Post-synthesis QC, mass spectrometry for short oligos and capillary electrophoresis (CE) for long oligos, ensure quality.

Choosing the synthesis scale and purification option that is best for your application depends on the nature of your downstream applications (Table 2). The table is designed to help you choose the right oligos and purification methods for your application.

In general, cartridge purification is fast and economical but may compromise purify or yield depending on the oligo sequence (sequences with 5′ G’s can be problematic). HPLC is more time consuming but gives excellent purity up to 55 bases. Above 55 bases, it becomes increasingly difficult to differentiate full-length product from n-1 failure sequences. PAGE purification gives excellent resolution even with very long oligos but generally sacrifices yield for quality.

Table 2. Recommeded oligo processing options by application

Application Desalted Cartridge HPLC PAGE
  • 25 nmole–10 μmole
  • 5–100 bp
  • Removes salts but not failure sequences
  • 50 nmole–1 μmole
  • 7–55 bp
  • Removes failure sequences
  • Provides 80% full-length sequence
  • 50 nmole–10 μmole
  • 10–55 bp
  • Removes failure sequences
  • Provides >85% full-length sequence
  • 50 nmole–10 μmole
  • 7–100 bp
  • Removes failure sequences
  • Provides > 90% full-length sequence
Standard PCR        
Specialty PCR        
cDNA Library Construction        
Fluorescent Sequencing        
Next-Generation Sequencing        
Gel Shift Assays        

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