It seems like it would be easier (for you) to store/process all the information using romaji. You could take your input this way also. You type in romaji but the japanese characters come up.

But I think I would look for an exsisting app since soon you will need to learn your vocab with kanji mixed in.

I know what you mean about wanting a customized tutorial though. On one hand, the object is to learn japanese. But unfortunately, you still have to pass the class so you have to learn THEIR vocabulary lists. ugh.

Here is a good place to learn the characters because you can learn one line at a time:
http://www.bigtrouble.com/kana