Apple has something like 50 million developers. It might be a while before they get around to your question.
You can start by clarifying a few things. Who sent this e-mail? Apple or your bank?
If the bank refused the payment, then it stands to reason that they wouldn't have any record of the transaction. There was no transaction.
Make sure all of your banking information is correct. Since this is an international account, you'll need Swift codes and all kinds of stuff. You'll have to inquire directly with your bank regarding what they need.
Note that your bank probably only deals with transfers from within Japan. They may not have any idea of what you're talking about.
Apple has more experience with these kind of issues, but there's no guarantee they actually have any information other than the refusal. Plus, due to privacy laws and the ungodly torrent of daily financial fraud, nobody is likely to tell you anything about anything.
The best place to start is with the bank. Confirm exactly what information they need for an incoming international wire or transfer. Note that those may not be the same thing. There are many different methods of financial transfers in the world. The US only recognizes 1 or 2 of them. Since Apple is a US company with US banks, they're going to expect what US banks expect circa 1983. I would guess that most foreign financial transactions wouldn't qualify for Apple.