Abstract: White-tailed sea eagle (Haliaeetus albicilla), a large raptor belonging to the Accipitridae of Accipitriformes, is a national first-class protected animal in China. As a top predator, it plays a significant role in maintaining ecosystem balance and biodiversity. During the winter, a large number of white-tailed sea eagles overwintering in Jingxin wetlands of Hunchun City, Jilin Province of our country, forming the largest wintering population in China. In order to study population genetics based on fecal samples and fill the research gap in Asian population of white-tailed sea eagles, it is necessary to develop new microsatellite (SSR) primers and sex identification primers. In this study, based on the whole genome data of white-tailed sea eagle published on NCBI, microsatellite primers and sex identification primers were developed. Then, white tailed sea eagle samples collected from Jingxin Wetland were used to screen the primers, and finally 9 pairs of SSR primers and 2 pairs of sex identification primers were obtained. This study provided abundant and effective SSR molecular markers for further study of population genetics of white-tailed sea eagle, and also provided new selections of primers for molecular sex identification of white-tailed sea eagle.