It is certainly possible to allocate funds to different accounts in QuickBooks. Let me guide you on how to do it.
1. Click on the Plus (+) icon, and choose on Bank Deposit.
2. Choose the account where funds should come from.
3. Scroll down to Add funds to this deposit.
4. Fill in the Account and Amount column. Note that you can add lines so that you can add multiple accounts.
5. Click Save and Close.
Here's a screenshot of what should be filled in the Bank Deposit page.