You pay the fee once for the application. No, they aren't going to charge you another $7,000 just because they rejected it. You've already paid for the application.
If you pay for one application and it is rejected, then that's the end of it. If you want to apply again, then yes, you'd pay all over again because you are making a new application. Every application needs payment to submit. You can't transfer payment from one rejected application to a new application, if that's what you're asking.