Patent ID: 7179906

Claim:
A phosphoramidite compound having the formula: wherein: B 1 is a phosphite ester protecting group; B 2 and B 3 , taken separately, are selected from lower alkyl, lower alkene, aryl and cycloalkyl, containing up to 10 carbon atoms; B 5 is selected from triphenylmethyl radical and electron-donating-substituted triphenylmethyl radical; B is a nucleobase; D comprises a dye of the formula: wherein: Y 1 and Y 2 taken separately are selected from the group consisting of hydroxyl, oxygen, imminium, and amine; R 1 –R 8 taken separately are selected from the group consisting of hydrogen, fluorine, chlorine, lower alkyl, lower alkene, lower alkyne, sulfonate, sulfone, amino, imminium, amido, nitrile, lower alkoxy, linking group, and combinations thereof; and R 9 is selected from the group consisting of acetylene, lower alkyl, lower alkene, cyano, phenyl, substituted phenyl, heterocyclic aromatic, and substituted phenyl having the structure: wherein: X 1 –X 5 taken separately are hydrogen, chlorine, fluorine, lower alkyl, carboxylic acid, sulfonic acid, —CH 2 OH, or linking group; wherein when B is purine or 7-deazapurine, the sugar moiety is attached at the N 9 -position of the purine or 7-deazapurine, and when B is pyrimidine, the sugar moiety is attached at the N 1 -position of the pyrimidine; wherein B and D are linked through a linkage attached to D at one of positions R 1 –R 9 ; and wherein if B is a purine, the linkage is attached to the 8-position of the purine, if B is 7-deazapurine, the linkage is attached to the 7-position of the 7-deazapurine, and if B is pyrimidine, the linkage is attached to the 5-position of the pyrimidine.