The present invention provides a separation container capable of preventing contamination with unnecessary components and efficiently separating a separation subject. The separation container is a separation container for separating a separation subject from a sample, including: an outer container an inner container and a lid, wherein the outer container has a bottomed tubular shape with upper end thereof open and a lower end thereof closed, the inner container is tubular with an upper and lower ends thereof open, the inner container can be disposed inside the outer container with the up and down orientation of the inner container and the outer container aligned, and with the inner container disposed inside the outer container, a region below the disposed inner container inside the outer container is a storage portion for a precipitate in the sample, the lid is attachable over and detachable from an opening at the upper end of the inner container, and the inner container is made liquid-tight by attaching the lid over the opening of the inner container.