This information applies to MYOB AccountRight version 19. For later versions, see our help centre.




Some customer payments may have merchant fees deducted before being deposited into your bank account. How you record these sales will depend on how the transaction is shown on your bank statement.

You should also check with your accounting advisor about how the tax on these transactions should be handled so it's reported correctly on your BAS/GST reports.


If your bank statement shows the sale with the merchant fee deducted

In this example, a customer payment is made using American Express (AMEX) and includes merchant fees that are taxable. The sale of $220.00 was charged $11.00 in AMEX merchant fees (inclusive of GST). Your bank statement then shows the AMEX payment less the merchant fee.

This scenario assumes you know, or can calculate, the value of the merchant fee.

  1. Create an asset account to temporarily hold the funds collected and paid (Accounts > Accounts List > Asset tab > New).
  2. Create an invoice for the sale and enter the full amount, including any fees (Sales > Enter Sales).
  3. Record the payment (Sales > Receive Payments).
    • Select the option Group with Undeposited Funds.
    • Select the Customer.
    • Select the applicable Payment Method.
  4. Go to BankingPrepare Bank Deposit and click Deposit Adjustment.
  5. In the Fees and Cash Back section, enter the merchant fee in the Amount field and select the Amex Clearing Account in the Expense Account field.
  6. Click Record. A new transaction line representing the merchant fee will appear in the Prepare Bank Deposit window.
  7. Select the transactions and the fees that make up the total value of the deposit to your bank account, then click Record.


The Bank Register window now shows a single transaction representing what was actually received into your bank account.

Clicking the transaction's zoom arrow displays the breakdown of the transaction, consisting of the payment received and the deducted merchant fee:

At the end of these transactions:

  • the sale is closed, and
  • the merchant fee expense is recorded

Paying the merchant fee

When you choose to pay the merchant their fees, use a Spend Money transaction (Banking > Spend Money). This will move the funds from the AMEX Clearing Account to the applicable expense account, and return the clearing account to a zero balance.

When recording the Spend Money transaction:

  • In the Pay from Account field, select the Amex Clearing Account.
  • At line level, specify the applicable expense account.
  • Select the applicable Tax/GST code (check with your accounting advisor if unsure).

Here's our example:

If your bank statement shows the merchant fee separately

In this example, a customer payment is made using American Express which includes taxable merchant fees. The sale totals $220.00 which includes $11.00 in merchant fees (inclusive of GST). Your bank statement shows the full AMEX payment including the merchant fee, and also shows the merchant fee being deducted as a separate entry.

  1. Create an invoice for the full amount of the sale (Sales > Enter Sales).

  2. Record the payment against the open invoice (Sales > Receive Payments).
  3. Record a Spend Money transaction for the merchant fee (Banking > Spend Money). In our example we've allocated the expense to a merchant fees expense account: