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Affinity Plus DNA & RNA Oligonucleotides

Oligos incorporating locked nucleic acids (LNAs) for enhanced stability and nuclease resistance

Affinity Plus DNA & RNA Oligonucleotides are custom, single-stranded and duplexed sequences that contain 1–20 LNA nucleotides. Incorporation of the LNA nucleotides confers increased target specificity and oligo stability. Including Affinity Plus LNA nucleotides in your oligos:

  • Provides an affordable way to improve performance in a variety of hybridization-based applications
  • Allows you to manage sequence Tm, resulting in greater hybridization specificity
  • Improves stability and exonuclease resistance (in vitro and in vivo)

See the Locked nucleic acids (LNA) technology page for the structure of these modified bases and to learn about the many applications they can facilitate.

Ordering

Affinity Plus Single-Stranded DNA

Shipped dry, or resuspended to your specifications.

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Affinity Plus Duplexed DNA

2 oligos, annealed and delivered in a single tube. Shipped dry.

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The following annealing fees will be applied to each duplex ordered:

100 nmol:

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250 nmol:

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1 µmol:

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Affinity Plus Single-Stranded RNA

Shipped dry.

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Affinity Plus Duplexed RNA

2 oligos, annealed and delivered in a single tube. Shipped dry.

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Annealing fees will be applied to duplexed oligos (per duplex), as follows:

100 nmol:

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250 nmol:

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1 µmol:

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Affinity Plus Single-Stranded DNA

Shipped dry, or resuspended to your specifications. A minimum of 24 and 96 oligos required for 96- and 384-well plates, respectively.

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Affinity Plus Duplexed DNA

1 oligo pair per well, annealed. Shipped dry. A minimum of 24 and 96 oligo duplexes are required for 96- and 384-well plates, respectively.

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The following annealing fee will be applied to each plate of duplexed DNA:

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Affinity Plus Single-Stranded RNA

Shipped dry or resuspended to your specifications. A minimum of 24 or 96 oligos required for 96- or 384-well plates, respectively.

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Affinity Plus DNA & RNA Oligonucleotides are LNA single- and double-stranded sequences. With the Oligo Entry ordering tool, you can design the sequence you require with 1 to 20 LNA nucleotides to suit your specific research needs.

Every Affinity Plus DNA & RNA Oligo you receive is deprotected and desalted to remove small molecule impurities. In addition, your oligos will be sequence verified via proprietary ESI mass spectrometry methods*, and quantified twice by UV spectrophotometry to provide accurate yield measurements.

*With the exception of mixed base oligos, which could potentially represent multiple sequences and therefore cannot be accurately evaluated by ESI mass spectrometry.

Using the Oligo Entry tool

To enter individual Affinity Plus LNA nucleotides, insert "+" before the base (+A, +C, +G, +T).

Enhanced oligo stability

Affinity Plus Oligonucleotides provide identical annealing properties as other manufacturers’ LNA sequences (Figure 1). The increased hybridization affinity and thus hybridization melting temperature (Tm) means enhanced sequence stability both in vitro and in vivo.

Figure 1. Sequences containing Affinity Plus LNAs show identical annealing properties to LNA sequences from another manufacturer. The percentages of duplex melted base pairs are plotted as a function of temperature. The 15-mer sequence, GGTCCT+T+A+CTTGGTG, was synthesized with either Affinity Plus or other LNA modifications incorporated at the +T, +A, and +C sites. These oligos were mixed with the complementary DNA strand (1 μM each strand) in 1 M Na+ buffer (pH 7). Melt curves were performed as described in Owczarzy, et al., Biochemistry (2004), 43:3537–3554. The plots of duplex melted base pairs were averaged from at least 7 heating and cooling melting curves. Melting temperature was measured to be 67.7 ±0.3 °C for the Affinity Plus LNA oligo and 67.9 ±0.3°C for the other LNA oligo. Free energy of duplex hybridization at 37°C was determined to be –18.1 ±0.9 kcal/mol for the Affinity Plus LNA oligo and –18.7 ±0.9 kcal/mol for the other LNA oligo. These results demonstrate the identical annealing properties of both sources of LNA sequences.

Sensitive target detection in qPCR and SNP assays

The Affinity Plus LNA sequences can be used as probes, for example, in qPCR and genotyping assays. The higher Tm of these sequences provides better hybridization stability to target regions, especially those with low GC content. This increased stability also makes it possible to use shorter probe designs, which are helpful when target regions are limited in size. For these applications, obtain these LNA probes as Affinity Plus qPCR Probes. These LNA probes provide the same sensitive amplification as other LNA probes, and show increased sensitivity over unmodified probes (see Figure 2 on the Performance tab of the Affinity Plus qPCR Probes product page).

Brochures and flyers

Frequently asked questions