While the opposition between the Yoshiaki-Nobunaga pair and the Sakihisa-Ishiyama Hongan-ji Temple alliance proved to make up a cause of subsequent Genki heiran (the Genki Disturbance), Yoshiaki whose relationship with Nobunaga worsened in the process of warfare made peace with Hongan-ji Temple to form an Anti-Nobunaga alliance (so-called Nobunaga encircling net), which eventually was defeated by Nobunaga, and the Muromachi bakufu collapsed.
義昭・信長と前久・石山本願寺との対立は後の元亀兵乱の一因となるが、兵乱の過程において、信長との関係が悪化した義昭は本願寺と和解し反信長同盟（いわゆる信長包囲網）を形成するも信長に敗れ、室町幕府は滅亡することになる。