Aromatic-substituted xanthene dyes
First Claim
1. An aromatic-substituted xanthene dye compound having the formula:
- ##STR22## wherein;
Y1 and Y2 taken separately are selected from the group consisting of hydroxyl, oxygen, imminium, linking group and amine, or Y1 taken together with R2 is cyclic amine, or Y2 taken together with R3 is cyclic imine;
R2, R3, R5, and R7 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, phenyl, and linking group;
R1 taken separately is selected from the group consisting of phenyl, substituted phenyl, polycyclic aromatic, substituted polycyclic aromatic, and electron-rich heterocycle, or when taken together with R7 is selected from the group consisting of electron-rich heterocycle;
R4 taken separately is selected from the group consisting of hydrogen, fluorine, chlorine, lower alkyl, lower alkene, lower alkyne, sulfonate, sulfone, amino, imminium, amido, nitrile, lower alkoxy, phenyl, linking group, amine, phenyl, substituted phenyl, polycyclic aromatic, substituted polycyclic aromatic, indene, and electron-rich heterocycle, or when taken together with R5 is selected from the group consisting of phenyl, substituted phenyl, polycyclic aromatic, substituted polycyclic aromatic, indene, and electron-rich heterocycle; and
R6 is selected from the group consisting of acetylene, lower alkyl, lower alkene, cyano, phenyl, substituted phenyl, heterocyclic aromatic, and combinations thereof, the substituted phenyl having the structure;
##STR23## wherein;
X1 -X5 taken separately are hydrogen, chlorine, fluorine, lower alkyl, carboxylic acid, sulfonic acid, --CH2 OH, or linking group.
8 Assignments
0 Petitions
Reexamination
Accused Products
Abstract
A class of aromatic-substituted xanthene compounds useful as fluorescent dyes is disclosed, the compounds having the general structure where Y1 and Y2 taken separately are selected from the group consisting of hydroxyl, oxygen, imminium, linking group and amine, or Y1 taken together with R2 is cyclic imine, or Y2 taken together with R3 is cyclic amine; R2, R3, R5, and R7 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, phenyl, and linking group; R1 taken separately is selected from the group consisting of phenyl, substituted phenyl, polycyclic aromatic, substituted polycyclic aromatic, linking group and electron-rich heterocycle, or when taken together with R7 is selected from the group consisting of electron-rich heterocycle and indene; R4 taken separately is selected from the group consisting of amino, amido, phenyl, substituted phenyl, polycyclic aromatic, substituted polycyclic aromatic, indene, linking group and electron-rich heterocycle, or when taken together with R5 is selected from the group consisting of phenyl, substituted phenyl, polycyclic aromatic, substituted polycyclic aromatic, indene, and electron-rich heterocycle; and R6 is selected from the group consisting of acetylene, lower alkyl, lower alkene, cyano, phenyl, substituted phenyl, and heterocyclic aromatic. In another aspect, the invention includes methods for synthesizing the above dye compounds and intermediates. In yet another aspect, the present invention includes reagents labeled with the asymmetric benzoxanthene dye compounds, including deoxynucleotides, dideoxynucleotides, phosphoramidites, and polynucleotides. In an additional aspect, the invention includes methods utilizing such dye compounds and reagents including dideoxy polynucleotide sequencing and fragment analysis methods.
-
Citations
48 Claims
-
1. An aromatic-substituted xanthene dye compound having the formula:
- ##STR22## wherein;
Y1 and Y2 taken separately are selected from the group consisting of hydroxyl, oxygen, imminium, linking group and amine, or Y1 taken together with R2 is cyclic amine, or Y2 taken together with R3 is cyclic imine;R2, R3, R5, and R7 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, phenyl, and linking group; R1 taken separately is selected from the group consisting of phenyl, substituted phenyl, polycyclic aromatic, substituted polycyclic aromatic, and electron-rich heterocycle, or when taken together with R7 is selected from the group consisting of electron-rich heterocycle; R4 taken separately is selected from the group consisting of hydrogen, fluorine, chlorine, lower alkyl, lower alkene, lower alkyne, sulfonate, sulfone, amino, imminium, amido, nitrile, lower alkoxy, phenyl, linking group, amine, phenyl, substituted phenyl, polycyclic aromatic, substituted polycyclic aromatic, indene, and electron-rich heterocycle, or when taken together with R5 is selected from the group consisting of phenyl, substituted phenyl, polycyclic aromatic, substituted polycyclic aromatic, indene, and electron-rich heterocycle; and R6 is selected from the group consisting of acetylene, lower alkyl, lower alkene, cyano, phenyl, substituted phenyl, heterocyclic aromatic, and combinations thereof, the substituted phenyl having the structure;
##STR23## wherein;
X1 -X5 taken separately are hydrogen, chlorine, fluorine, lower alkyl, carboxylic acid, sulfonic acid, --CH2 OH, or linking group. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48)
- ##STR22## wherein;
Specification