Hi there, @tess1965. I'm happy to share with you some information about filing VAT in QuickBooks Online (QBO). 

When filing the return, the figure that will be submitted is the one showing against Box 5 Net VAT to pay (or reclaim) on the Prepare VAT Return page. To locate this, navigate to the Taxes menu and select Prepare Return. This accounts for the exceptions, which will be displayed in a separate column.

For reference, feel free to check this article: File your VAT return and record tax payments in QuickBooks Online. 

Additionally, I've added this helpful resource that you can open to have a detailed look at the taxes you owe and the reason you owe them: Check how much VAT you owe in QuickBooks Online.

Let me know if you have further questions about this. I'm always around in the Community to lend a hand. Have a great day and take care.