You could consider implementing and learning jQuery, which has a few plugins to fade things as well as built in functions such as fadeIn(), fadeOut(), etc.
You could use multiple divs fade using a selector like this
$('#div1, #div2').fadeOut(1000);
Good luck!
Extra Help
More specifically if at this stage you'd like to get started on fading Div's, check out the jQuery docs at http://docs.jquery.com, more specifically the selectors (for selecting the div) and the effects (for learning how and which functions to use).