A magnetic resonance imaging apparatus includes an RF coil unit which generates RF pulses toward a subject, and which receives an MR signal from the subject. Gradient magnetic field coils generate a gradient magnetic field for slice selection, a gradient magnetic field for phase encoding and a gradient magnetic field for frequency encoding, respectively. An arithmetic unit generates image data on the basis of the MR signal, and a sequence controller controls phase encoding gradient magnetic field coils in order to generate flow pulses for dephasing or rephasing the MR spin of blood flow within the subject, in the same direction as that of the phase encoding gradient magnetic field.