You can record the payment as a sales receipt since the sale happens on the same day. You can also utilize the Add and Match function so you won't need to convert each deposit. You can read through this article to learn more: Categorize and match online bank transactions in QuickBooks Online.
In addition, I'd recommend contacting your bank so you can appropriately map your sales transaction base on the affected accounts.
Lastly, here's an article you can read for ideas about where you can find your transaction after categorizing them: Find, review, and edit transactions in account registers.
If there's anything else that I can help you with, let me know in the comments. I'll be around to help.