The drainage ditch has a compound ecosystem structure consisting of water, sediment and plants. Migration and transformation of the non-point source solute is important to study interception, control and management of agricultural non-point source pollution in the drainage ditch. Based on the experiment on static simulation of drainage ditches, the article used typical non-point source soluble nitrogen as an example to analyze the changing process of nitrogen content in water, sediment and reeds, and to study the effects of the sediment adsorption and desorption, reeds growth and death in different periods on nitrogen concentration in water. The article discussed nitrogen migration in water-sediment-reeds compound ecosystem and its influence on nitrogen concentration in water. The results showed that both adsorption and desorption in sediment and absorption and assimilation of reeds growth had effect on nitrogen concentration in water. The effect before October was reducing the nitrogen concentration in water, which was the process of nitrogen purification in water. After October, the nitrogen concentration in water increased and made it easy to form secondary nitrogen pollution. Meanwhile, the migration in the water-sediment-seeds ecosystem in simulated drainage ditch had close ties, any migration and transformation of nitrogen in a single medium or between different mediums would cause adjustment of nitrogen concentration in water.