The invention discloses a functional marker associated with 
drought resistance of rape in the 
seedling stage and application of the functional marker. The sequence of the functional marker is as shown in SEQ ID NO:1, and the molecular weight is 465 bp. Application of the functional marker in drought-resistant 
seedling breeding of rape includes the steps that firstly, the 
DNA of a rape 
plant is extracted; secondly, PCR amplification is conducted, wherein the primer sequence F is 5'-TGAGGCTGATAGGATACTGG-3', and the primer sequence R is 5'-CCACGGGCACCTACATTA-3'; thirdly, after the amplification product is subjected to electrophoretic separation with 
agarose gel with the concentration being 1.5%, it is predicted that draught resistance of the rape 
plant is good when a specific band of the functional marker with the molecular weight being 465 bp occurs, and it is predicted that draught resistance of the rape 
plant is poor when the specific band of the functional marker with the molecular weight being 465 bp lacks. The new 
genetic marker is provided for genetic improvement of 
drought resistance of the rape in the 
seedling stage, the problems that a conventional seedling breeding method is large in 
drought resistance identification 
workload, the period is long and the method is influenced by the environment easily are solved, selection efficiency of drought resistance seedling breeding of rape is remarkably improved, and the seedling breeding progress of new varieties is accelerated.