AP-dC-CE Phosphoramidite


Product Specifications

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Substitution of C-5 propynyl-dC (pdC) for dC and C-5 propynyl-dU (pdU) for dT are effective strategies to enhance base pairing. Using these base substitutions, duplex stability and melting temperatures are raised by the following amounts: C-5 propynyl-C 2.8° per substitution; C-5 propynyl-U 1.7° per substitution. AP-dC (G-clamp) substitutes for dC and is another very important modified nucleoside that enhances hybridization by 7-21° per substitution depending upon the sequence and location of the AP-dC. The ability of these modified bases to enhance binding while maintaining specificity has proven useful in antisense research and in the synthesis of high affinity probes. AP-dC is also a fluorescent nucleoside and should find uses in DNA structural research.



  • Coupling: No changes needed from standard method recommended by synthesizer manufacturer.
  • Deprotection: AMA (Ammonium hydroxide/40% Methylamine 1:1 v/v) for 10 minutes at 65°C is recommended. (To prevent modification of dC by Methylamine, use Ac-dC (10-1015-xx) during synthesis.)
Diluent Anhydrous Acetonitrile
Storage Refrigerated storage, maximum of 2-8°C, dry
Stability 24 hours

Intellectual Property

This product is covered by patents or patents pending owned by Ionis Pharmaceuticals, Inc. ("Ionis"). Purchase of this product includes a limited license to use this product solely as an intermediary in the manufacture of oligomers containing 6 or more nucleosides ("Oligonucleotides") for internal research. This license specifically excludes (and you have no right to use this product or Oligonucleotides for): (a) therapeutic or diagnostic applications (including products or services that incorporate this product or Oligonucleotides), (b) any in vivo toxicity/safety study in support of an investigational new drug application (or foreign counterpart), (c) resale (including sale of any products or services that incorporate this product or Oligonucleotides) or (d) gene functionalization activities (including products or services that incorporate data derived from gene functionalization activities) if such activities have commercial application, any and all of which require a separate license from Ionis. Neither this product nor any product created through its use may be used in human clinical trials.

Dilution/Coupling Data

The table below show pack size data and, for solutions, dilution and approximate coupling based on normal priming procedures.

ABI 392/394

Catalog # Pack Size Grams/Pack 0.1M Dil. (mL) Approximate Number of Additions
LV40 LV200 40nm 0.2μm 1μm 10μm
10-1097-02 0.25 g .25grams 2.56 72 43.2 27 19.64 14.4 3.6
10-1097-90 100 µmol .097grams 1 20 12 7.5 5.45 4 1
10-1097-95 50 µmol .049grams 0.5 3.33 2 1.25 0.91 0.67 0.17


Catalog # Pack Size Grams/Pack Dilution (mL) Approximate Number of Additions
Molarity 50nm 0.2μm 1μm 15μm
10-1097-02 0.25 g .25grams 3.83 0.07 70.2 43.88 31.91 4.39
10-1097-90 100 µmol .097grams 1.5 0.07 23.6 14.75 10.73 1.48
10-1097-95 50 µmol .049grams 0.75 0.07 8.6 5.38 3.91 0.54