Synthesis and Applicability of Base-Discriminating DNA-Triplex-Forming F-19 NMR Probes

Phosphoramidite building blocks of CF3-modified N-4(6-amino-2-pyridinyl)deoxycytidines were synthesized, incorporated into triplex-forming 2-deoxyoligonucleotide strands and the applicability of the probes to recognize nucleobase content in the pyrimidine-rich strand of double-helical DNA targets was evaluated. As expected, the obtained F-19 NMR resonances were sensitive to the base content and unique F-19 NMR spectral fingerprints could be obtained.