The embodiments of the present disclosure provide a base plate, a manufacturing method thereof and a display panel, relating to the field of display technology. Ink droplets in grooves defined by a pixel defining layer can be spread uniformly, thereby effectively improving the product quality and the display effect. The base plate comprises a substrate and a pixel defining layer arranged on the substrate, wherein the pixel defining layer comprises dams and several micron-sized protrusions arranged on the upper surfaces and sides of the dams; and the protrusions have lyophobic property.