An image capturing apparatus is provided. The apparatus comprises an image sensor comprising pixels and a controller. The pixels include a photoelectric converter, a holding unit, an output unit and a first and second transfer unit. The controller causes the sensor to repeatedly perform a holding operation that the first transfer unit transfer charge from the photoelectric conversion unit to the holding unit, and a transfer operation that the second transfer unit transfer the charge from the holding unit to the output unit. The controller causes the sensor to perform, as the holding operation, holding operations including a first holding operation for performing the first transfer unit transfer charge generated in a first exposure time and a second holding operation for performing the first transfer unit transfer charge generated in a second exposure time longer than the first exposure time.