Abstract: To clarify the genetic development and regulatory genes of purple grain traits in purple wheat, the reciprocal cross was made between Guizimai 1（purple grain wheat） and Guinong 19 or Guinongmai 30（white grain wheat） to construct research populations with different hybrid generations（F₁ to F₅ and BC₁F₁）. According to the separation of purple grain traits of hybrid offspring, the genetic law of grain color was explored. Genome-wide sequencing（GWS） combined with cluster separation analysis（BSA） were used to map purple grain traits in Guizimai 1. The results showed that the purple grain traits of Guizimai 1 were controlled by two pairs of dominant complementary genes. And, the results of GWS and marker screening showed that the two complementary phenotypic motifs controlling purple grain traits of Guizimai 1 were located on 2 AL and 7 DL chromosomes, and the motifs controlling purple grain traits were further named GZMpp1 and GZMpp2.The genetic distance between GZMpp1 and the marker chr2 A 32 was 1.2 cM, while The genetic distance between GZMpp2 and the marker DY-7 D 6 was 0.5 cM.