Well it technically hasn't been rejected yet, as you haven't got it back!
Yes, you know it has been from the declined charge, but just let it play out. They have a procedure for this, they stamp everything and send it back to you, and you just edit what needs editing, and resend it.
Again, the card is proof of status, and not the status itself. It will not be considered late, it will not be refused, you won't be deported.