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Level 1

reconciling payroll with bank statement

needing to know how to correctly account for partial paycheck. I actually pay myself a standard paycheck as with our standard employees. Here's the tricky part: I have it set up for our BANK to auto deposit a flat $300.00 every week to my personal account from the business account as my paycheck. However, my paycheck is for more than the $300.00 but I never actually receive the full amount. How do I account for the remaining balance?

example: paycheck = $410.00, money withdrawn = $300.00, $110.00 to remain in company bank account for business use. 

So, my bank statement shows the $300.00 but my QB payroll shows the $410.00.

4 Comments 4
Frank N
Level 1

reconciling payroll with bank statement

I think QuickBooks is taking out your federal taxes. I pay myself $400 per week. I would print out a hard check each week. The amount of the check was for $344. I didn't have direct deposit until yesterday. 

My new check amount is $322. Because my state withholding is now being taken out.

I don't know how to pay the taxes though.


reconciling payroll with bank statement

I'd be glad to help you pay your payroll taxes, Frank.


You just need to follow these steps on how you can create a tax payment in QBO:


  1. Go to Taxes menu and select Payroll Tax.
  2. Click Pay Taxes.
  3. Look for the tax that you want to pay, then click Record payment.
  4. Follow the succeeding prompts to create and print the liability check.

You can also sign up for e-services so you can pay your taxes electronically. Here's an article as a guide: Pay And File Payroll Taxes Online.


Feel free to check out these additional articles as more for more details about tax payments:


Let me know if you need more help when running payroll in QuickBooks. 


pay tax.PNG


Level 1

reconciling payroll with bank statement

Hi I'm using Intuit payroll and direct deposit, I can see paychecks, and have paid the taxes and filed the returns but when I use bank feeds to import the bank transactions.

  1. I cant figure out how to apply the tax e-payments. I select a transaction from salaries and wages where the total excluding employer tax is shown I cant find an account where the actual tax is and if it is registered as paid. The net wage liability and payment is showing up in a  direct deposit account so I am not sure if the bank feeds from the bank are a duplicate I am not sure how to reconcile the bank feed transaction and which account to assign it to.  It is not automatically matching the payments to the direct deposit checks in the direct deposit it a duplicate the direct deposit checks are not showing in the bank account reconciliation list.
  2. when I look at the payroll tax account none of the taxes paid are showing in this account I don't know where intuit payroll assigns it. I can only see it in the paycheck detail but not in the chart of accounts list. Also I cant reconcile this in the bank account reconciliation I don't know which account type to select. When I select they paycheck details the echeck says it is a zero balance yet if i click on the paycheck detail I can see the amounts but as soon as I go to epay the amount on the check says zero. Its very strange.
QuickBooks Team

reconciling payroll with bank statement

Hi, @Audimc.


I admire you for outlining the details of your concern. Let's work hand in hand so you can sort out this issue one at a time.


To start, we can set up or enroll in E-File & E-Pay to electronically file and pay your payroll taxes in QuickBooks Online Payroll. You can view this reference for a more detailed step-by-step procedure: Set up e-file and e-pay in QuickBooks Online Payroll.


Also, we can track the status of our payroll tax payments submitted through QBO. For more information about this, here's an article you can read: Check e-file or e-pay status.


Moreover, I recommend contacting our QuickBooks Online Payroll Support Team to assist you with this matter further. They have tools to check into your account in a safe environment, check why your check shows zero balance, and give possible fixes to handle these taxes.


Here's how:


  1. Go to Help (?), then click Contact Us.
  2. Please enter your question and select Let's talk.
  3. Review and Select from the following: Ask the communityHave us call you, or Chat with us.


Please know that when contacting our support, ensure to reach them during their available hours.


Stay in touch if you have any other payroll-related questions or concerns. I'll be right here to answer them for you. Keep safe always.

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