To stably produce domestic wheat under water-scarce environmental conditions due to climate change, root characteristics with excellent water utilization rates are crucial. In this study, we analyzed the root and grain phenotypes of 37 domestic wheat varieties over a two-year period by combining the results of genetic mutations related to semi-dwarfing and grain size. Root length was positively correlated with maximum root depth (r=0.76**) and total seminal root length (r=0.54**), whereas it was negatively correlated with the number of roots (r=-0.33**) and root angles (r=-0.51**). The thousand-kernel weight was positively correlated with embryo width (r=0.34**) and embryo area (r=0.33**) but was not correlated with other root traits. Embryo length was positively correlated with the number of roots (r=0.34**) and coleoptile length (r=0.42**). Phenotypic analyses of roots and grains, along with genotypic analyses of semi-dwarfing (Rht-B1 and Rht-D1) and grain size (TaCWI-4A, TaCWI-5D, TaGW2-6A, TaSus2-2B) genes, revealed that the Rht-D1b genotype led to reduced root depth, increased root angles, and reduced coleoptile length. TaCwi-A1, TaCWI-5D, TaSus2-2B, and TaGW2-6A, possessing the alleles TaCwi-A1a, Hap-5D-C, Hap-L, and Hap-6A-G associated with a larger grain size, resulted in an increased number of roots and root depth. Domestic wheat varieties were categorized into three clusters based on root, grain, and coleoptile trait characteristics, with 15 varieties in Cluster I, 9 in Cluster II, and 13 in Cluster III. The results of this study can be utilized in basic research to develop varieties that can produce stable domestic wheat by selecting resources with excellent root growth and seed characteristics.