Little - who expects to be fit after a hamstring injury to face the Clarets - will not enjoy facing Owen Coyle's side where he made his name earlier in his career.
He told the Reading Evening Post: "It is an extra special game for me, but I have to admit I am bitterly disappointed we have to play them.
"Burnley was my first main club and I spent eight years there trying to help them get into the Premier League and now I have to try and stop them.
"I see it as my home and it is just such a shame. It is really unfortunate how it has turned out. In an ideal world we would have beaten Birmingham on Sunday and would now be up so I could just cheer on Burnley.
"But as we all know football doesn't always work out as you would like, so all I am doing now is concentrating on helping Reading get to Wembley."