It;s great to see you here, @ryan666,

What you need to do is create 2 payments and deposit it to the accounts where it needs to go. Here's how to do it:

1. Click the + New icon and pick Receive Payment.
2. Enter the customer name and select the invoice to pay.
3. In the Deposit to field, add the account where you want to deposit the funds.
4. On the Payment column, enter the partial payment amount paid.
   
5. Click Save and close once you're done.

The status of the invoice will automatically be tagged as Partial. Check out this link to help you create customer payments: Record customer payment in QuickBooks Online.

If you have any questions about applying payments, please let me know in the comment below. Have a good one!