In spite of the importance of parental inheritance effects, many aspects remain inadequately explained. The objective of this study was to explore parental effects on their progeny by estimating the variability of nutritional content in peanut seeds. The peanut cv. Boreom 1 was derived from Suwon 108 (female) and Milyang 4 (male). Protein and amino acid analyses revealed that male and female parent influences on protein, Asp, Thr, Ser, Glu, Pro, Ala, Cys, Val, Met, Ile, Leu, Tyr, Phe, His, and Arg content in their progeny. The oil and fatty acid composition (C16:0, C18:0, C18:1, C18:2, C20:0, C20:1, and C22:0) of the progeny were controlled by both parental types. The synergistic interaction of female and male parental genes was also shown on sucrose and stachiyose content, while paternal effect was found on raffinose in their progeny. The antioxidant activity, daidzin, glycitin, genistin, mal-glycitin, maldaidzin, mal-genistin, and daidzein content of Boreom 1 were significantly correlated with those secondary metabolites of female parent. Our results documented that both parental genes differentially influenced on nutritional composition of their progeny, Boreom 1. This biochemical evidence of parental effects would be support to identify the suitable cultivars to improve the crop breeding.