In this paper, we present auto-annotation tool and synthetic dataset using 3D CAD model for deep learning based object detection. To be used as training data for deep learning methods, class, segmentation, bounding-box, contour, and pose annotations of the object are needed. We propose an automated annotation tool and synthetic image generation. Our resulting synthetic dataset reflects occlusion between objects and applicable for both underwater and in-air environments. To verify our synthetic dataset, we use MASK R-CNN as a state-of-the-art method among object detection model using deep learning. For experiment, we make the experimental environment reflecting the actual underwater environment. We show that object detection model trained via our dataset show significantly accurate results and robustness for the underwater environment. Lastly, we verify that our synthetic dataset is suitable for deep learning model for the underwater environments.