In this paper, we present a multi-class eye segmentation method that can run the hardware limitations for real-time inference. Our approach includes three major stages: get a grayscale image from the input, segment three distinct eye region with a deep network, and remove incorrect areas with heuristic filters. Our model based on the encoder-decoder structure with the key is the depthwise convolution operation to reduce the computation cost. We experiment on OpenEDS, a large scale dataset of eye images captured by a head-mounted display with two synchronized eye facing cameras. We achieved the mean intersection over union (mIoU) of 94.85% with a model of size 0.4 megabytes.