Hi Brenda
Because you are acting as agent, I'd put the cheque you paid to an "other debtor" account and then put the invoice to your client to the same account so that it cancels out. On the account code settings you would need to make the other debtor account visible to purchases and sales.
You raise the invoice as usual and there are then two ways to allocate the receipt against it:
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When you upload or feed in the bank transactions you explain the money in as being a receipt from this client and will immediately be presented with the unpaid invoice to allocate the payment against.
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If "Quick pay invoices" is Toggled on in Settings>Configure>Toggles, when you look at the invoice you've entered there will be a Quick pay section bottom right of the screen that enables you to enter the bank receipt against it to pay it off. Then when you come to explain the bank statement entry, rather than show you the unpaid invoice, it will ask you to confirm that this bank receipt is the one you've already entered via quick pay.