The invention belongs to the technical field of medical imaging, and discloses an optical projection tomography device based on a smart phone, a system and a method thereof, and the device is provided with a uniform area light source, a transparent sample, a stepping motor, a stepping motor driver, a control panel, a mobile terminal and a support. The uniform area light source emits visible light; the transparent sample is hung below the stepping motor; the transparent sample is rotated by the stepping motor; the stepping motor driver controls the rotation angle and the rotation speed of the stepping motor; the control panel controls the stepping motor driver to rotate the stepping motor; the mobile terminal is provided with Bluetooth or Wi-Fi, and is used for controlling device operation, image acquisition and reconstruction result display; and the support supports the uniform area light source, the stepping motor and the mobile terminal and is used for adjusting the height of the stepping motor and the mobile terminal. The optical projection tomography teaching system based on the smart phone is low in cost, simple in structure and convenient to operate.