The invention relates to a reactive dye with a red-yellow-blue matrix structure multi-chromophoric system as well as a preparation method and application of the reactive dye. The structural formula of the reactive dye is as shown in the specification, wherein R1, R2, R3 and R4 are as shown in the specification. The preparation method comprises the following steps: enabling cyanuric chloride and 1-amino-2-sulfonic acid-4-(3-amino-2,4,6-trimethyl-5-sulfoanilino) anthraquinone sodium salt to react so as to obtain a pre-condensate; enabling a corresponding intermediate of R1 to react with the pre-condensate so as to obtain a di-condensate; enabling a corresponding intermediate of R2 to react with the di-condensate so as to obtain a tri-condensate; enabling the tri-condensate to react with at least one of diazonium salts of R3 and R4, thereby obtaining the reactive dye with the red-yellow-blue matrix structure multi-chromophoric system. The dye disclosed by the invention has high molar extinction coefficient and excellent deep dyeing property and color fastness, realizes color matching in dye molecules and can be used for dyeing and printing of cotton, viscose, protein fibers and blended fabrics thereof.