Even after the Kamakura bakufu, when a samurai government was established, it continued to rule in step with the old aristocratic system of government in Kyoto (called the "lord governing in heaven" system) as part of a two-part government, but as a result of the Jokyu Rebellion, the shogunate gained the upper hand, placing restrictions on the power of the Imperial Court, and achieving influence over matters of Imperial succession etc.
武家政権である鎌倉幕府の成立後、京都の公家政権（治天の君）との二頭政治が続いていたが、この乱の結果、幕府が優勢となり、朝廷の権力は制限され、幕府が皇位継承などに影響力を持つようになる。