The fall armyworm (FAW), Spodoptera frugiperda (Lepidoptera, Noctuidae), has emerged as a highly invasive pest globally in the past decade due to its remarkable migratory capabilities. Magnetic receptors play an important role in the migration and navigation of the animal, but little is known about the molecular mechanism of the magnetic receptors of S. frugiperda (SfMagR). In this study, we successfully cloned the cDNA encoding SfMagR, which has a 396 bp of open reading frame (ORF) encoding 132 amino acids. Phylogenetic analysis revealed a high conservation of magnetic receptors among various animal species, notably demonstrating a 98.4% sequence identity between S. frugiperda and Spodoptera litura, and a 70.3% identity with Homo sapiens, a vertebrate species. Expression analysis conducted across different developmental stages demonstrated SfMagR expression in the egg, larval, and pupal stages of the moth, but exhibited predominate expression in the adult stage, particularly in male adults. Moreover, the tissue expression profile indicated that SfMagR expression primarily occurred within the thorax of the moth, specifically in the thorax excluding the legs and wings. These findings not only provide fundamental data and a molecular foundation for future investigations into the function of SfMagR, but also offer valuable insights for the future management of invasive species.