H.264 Codec -- MP4 or MOV format?

Hello,

I'm encoding multiple files to the popular H.264 codec at 900 kbps. I wanted to know if there was any difference between encoding to H.264 in a MPEG-4 file format or encoding to H.264 in a MOV file format. If they are different, what are the differences? And which one has superior quality?

Thanks!