A nucleic acid amplification reaction apparatus including a first heating section and a second heating section configured to heat a first region and a second region of a container respectively to a first temperature and a second temperature, higher than the first temperature, and a driving mechanism configured to switch the arrangement of the first and second regions in the order of first arrangement, second arrangement, and third arrangement. The first arrangement and the third arrangement are arrangement in which the first region is below the second region in a direction in which the gravity acts. The second arrangement is arrangement in which the second region is below the first region in the direction in which the gravity acts. The container includes a projecting section where an inner wall of the container projects outward and is configured to enable the reaction liquid to stay therein in the third arrangement.