Regulation of seed germination and dormancy allow plants to adapt to various environmental conditions. Primary dormancy inhibits the germination of newly produced seeds, thus preventing germination of seeds during long periods of unsuitable environmental conditions (Koornneef et al., 2002; Shu et al., 2016; Penfield, 2017). Therefore, seed germination is a well-timed checkpoint that can help plants avoid detrimental effects of unfavorable environmental conditions on plant establishment and reproductive growth (Finch-Savage and Leubner-Metzger, 2006). Therefore, seed germination is important for grain yield and quality and rapid, near-simultaneous germination helps in cultivation; however, cultivars that germinate too readily can undergo pre-harvest sprouting, which causes substantial losses in areas that tend to get rain around harvest time. Moreover, our knowledge of mechanisms regulating seed germination in wheat remains limited. In this study, we analyzed function of a wheat-specific microRNA9678 (miR9678), which is specifically expressed in the scutellum of developing and germinating seeds. Overexpression of miR9678 delays germination and improves resistance to PHS in wheat through reducing bioactive gibberellins (GAs) levels; miR9678 silencing enhances germination rates. We provided evidence that miR9678 targets a long non-coding RNA (WSGAR) and triggers the generation of phased siRNA which play a role in the delay of seed germination. Finally, abscisic acid (ABA) signaling proteins bind the promoter of miR9678 precursor and activate its expression, indicating that miR9678 affects germination by modulating the GA/ABA signaling.