How do I file a VAT Return online?
If you’re running a business, you likely have to submit a VAT return every three months. Whilst this can seem like an administrative hassle, you should look at it as a mark of running a successful small business. The good news is, the process of submitting a Return has never been easier. We’re going to take a look at everything you need to know about submitting a VAT Return online.


In this article
What is a VAT Return?
Let’s get the basics out of the way first. Value Added Tax (VAT) is applied to the price of certain goods, services and other taxable supplies. The standard VAT rate is 20% for most goods and services, while some select items are charged at either 5% or even zero rated (0%).
As mentioned above, most businesses have to submit an online VAT Return to His Majesty’s Revenue and Customs (HMRC) every three months. This is a summary of your income and expenses as well as the VAT you need to pay or reclaim for this period. So, on your VAT Return you will see:
- Your total sales and purchases for the three-month period
- The amount of VAT you owe
- The amount of VAT you can reclaim for purchases made by your business
To submit a VAT Return, you first need to register with HMRC on the UK government website. Things have changed a bit recently and before you register with HMRC, you will need to create a Government Gateway user ID. If you are a business or organisation, you will also now need a device or authenticator app to be able to login. Once you have your Government Gateway user ID and your VAT number, you can begin the process of filing your VAT Return online.
The Making Tax Digital initiative
HMRC has made a gigantic push to bring everyone online to simplify and improve processes. This whole system is known as Making Tax Digital (MTD) for VAT. Since April 2019, all VAT-registered businesses with a taxable turnover above the current VAT registration threshold (£90,000) have been required to submit their VAT returns using MTD-compatible software – and since April 2022, this applies to every VAT-registered business, even those below the threshold. A huge change that impacted more than one million businesses and changed the way they keep and file their VAT records.
Once a business has registered for MTD, they will no longer be able to directly use their online account to file their VAT Return. Instead, they will have to use accounting software that is compatible with MTD. The positive around this is it makes things much easier to keep and submit records, whether that’s through an app or even by submitting your VAT return directly from any Excel spreadsheet.
Something to note, once you have registered for MTD, you still need to keep digital records and submit your VAT Return through MTD-compatible software even if your taxable turnover is below the VAT registration threshold. You must de-register from VAT or be exempt from MTD to not be required to file a return.
Completing a VAT Return online
If you’re not uploading your spreadsheets directly and still need to complete a VAT Return, there will be several parts of the online form that you need to complete. These are as below. These are the boxes of the VAT Return that you will be asked to complete when you submit your VAT Return online:
Box 1
The VAT due this period from sales and other outputs.
Box 2
The VAT due in this period from acquisitions of goods made in Northern Ireland from European Union Member States.
Box 3
The total VAT due as a sum of Box 1 and Box 2
Box 4
The VAT reclaimed in this period on purchases and other inputs (including acquisitions from the EU.
Box 5
The net VAT to pay HMRC or reclaim – this will be calculated automatically when filling out a VAT Return online.
Box 6
The total value of sales and any other outputs, excluding any VAT.
Box 7
The total value of purchases and all other inputs excluding any VAT.
Box 8
Brexit has affected this box, so it is for either of the following amounts: 1. All supplies of goods and related costs, excluding any VAT, to EU Member States made on or before 31 December 2020, 2. For supplies of goods and related costs, excluding any VAT, from Northern Ireland to EU Member States made from 1 January 2021.
Box 9
As with Box 8, this is for either: 1. For acquisitions of goods and related costs, excluding any VAT, from EU Member States made on or before 31 December 2020. 2. For acquisitions of goods and related costs, excluding any VAT, from EU Member States to Northern Ireland made from 1st January 2021.
The above can be altered if you use any of the special VAT accounting schemes, such as a Flat Rate VAT Scheme. You can see how this changes the specific items on the UK government website.
I submitted a late VAT Return, what happens now?
Missed your VAT return deadline? From 1 January 2023, HMRC switched to a points-based system – think of it a bit like penalty points on a driving licence.
Each late filing earns you 1 penalty point. Once you hit the threshold for your filing frequency (4 points for quarterly filers), HMRC issues a £200 fine – and another £200 for every late return after that until you clear the points. Points drop off after 2 years of filing on time.
On top of that, late payment now carries its own charges: HMRC starts adding interest from day 1 after the deadline, with a first penalty of 2% of the unpaid VAT after 15 days and an additional 2% at 30 days.
One more thing to note, you can also be penalised for:
- Careless or deliberate mistakes on your VAT Return
- Not telling HMRC their calculation is wrong within 30 days
- If you submit a paper VAT Return an exemption from online filing
ANNA makes filing a VAT Return as easy as can be. Our collection of Making Tax Digital (MTD) spreadsheet templates for calculating and submitting via our VAT bridging tool makes it super easy for everyone. If you have any questions, we’re here 24/7. Just email hello@anna.money and we’ll be in touch shortly.
Frequently asked questions
When is my VAT return due?
Your deadline is 1 month and 7 days after the end of your VAT accounting period. So if your quarter ends on 31 March, your return – and payment – is due by 7 May. Your exact due date is always shown in your HMRC VAT online account. ANNA will nudge you ahead of time, so it doesn't sneak up on you.
What does a completed VAT return look like?
Say your business has £60,000 in sales and £20,000 in expenses for the quarter. Here's how your boxes would look:
- Box 1: £12,000 – VAT charged on your £60,000 of sales (at 20%)
- Box 4: £4,000 – VAT you're reclaiming on £20,000 of business purchases
- Box 5: £8,000 – what you actually owe HMRC (Box 1 minus Box 4)
- Box 6: £60,000 – total sales, excluding VAT
- Box 7: £20,000 – total purchases, excluding VAT
Box 5 is calculated automatically when you file online, so no mental arithmetic required.
How do I pay my VAT bill after submitting?
Your payment deadline is the same as your filing deadline – 1 month and 7 days after the end of your VAT period. You've got a few options:
- Direct Debit – the easiest. Set it up once in your HMRC VAT online account and it goes out automatically.
- Bank transfer – use HMRC's sort code and account number (find them on gov.uk).
- Debit card – pay directly through your HMRC online account.
Pay on time. From January 2023, HMRC charges daily interest on anything overdue.
Can I still file a VAT return on paper?
For most businesses, no. Since April 2022, Making Tax Digital (MTD for VAT) means you must use MTD-compatible software to keep your records and file your return. Filing on paper without an exemption will earn you a penalty.
There are a small number of exceptions – for example, if a disability prevents you from using a computer, or your religious beliefs prohibit it. If you think you qualify, apply for an exemption at gov.uk before your next filing deadline.
How do I correct a mistake on my VAT return?
Spotted an error after you've filed? Don't panic.
- Net error of £10,000 or under (or less than 1% of your Box 6 figure, up to £50,000): just adjust the relevant boxes on your next return and note it in your records.
- Larger errors: you'll need to notify HMRC separately using form VAT652.
Catch and correct mistakes yourself – if HMRC spots them first, you risk a penalty. ANNA flags inconsistencies in your figures before you submit, so you're less likely to need this in the first place.
Do I still need to file a VAT return if I have nothing to report?
Yes – always. Even if you've had zero sales and zero purchases this quarter, a nil return is still due by your deadline. Skipping it counts as a late filing and earns you a penalty point under HMRC's points-based system. It takes about 2 minutes to file a nil return. Worth it.
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