Accountants for E-Commerce Businesses

Running an online store is exciting – but keeping on top of the numbers can be relentless. At Mollan & Co, our e-commerce accountants work with owners who want to stay in control of their finances without spending every evening buried in spreadsheets.

Based just outside of York, we combine the personal service of a local accountant with the efficiency of modern, cloud-based tools. You focus on running the shop – we’ll keep the figures accurate and up to date.

Why choose Mollan & Co for your online accounts

Selling online isn’t the same as running a shop on the high street. There are more moving parts, more platforms, and more rules to keep up with. We focus on making those moving parts work together.

We’re Cloud-Based, But Human First

As online accountants for e-commerce, we’re Xero Gold Partners, which means your finances stay up to date in real time, wherever you are. Prefer to keep QuickBooks or FreeAgent? No problem. We’ll work with the tools you already use. But we don’t stop at software. You’ll always deal with a real person, not just a portal.

A Named Accountant Who Knows Your World

Every client gets a dedicated accountant. Someone who’s in your corner, knows your business, and won’t need to be brought up to speed every time you call.

Built for E-commerce

We understand the complexities of selling across multiple platforms like Amazon, eBay, Shopify, and Etsy, and we know how to keep your accounts clear and compliant. From navigating UK and overseas VAT rules to managing the seasonal peaks and dips in sales, we provide the financial structure and cashflow guidance you need to stay profitable and confident as your business grows.

Based in York, Supporting the UK

While we’re firmly rooted in the Yorkshire business community, our systems and services are built to support online sellers all over the UK. Whether you’re based in London or Leeds, remote working is no barrier to proactive, responsive support.

Book your free, no-obligation consultation.

E-commerce services we cover

When we work with online sellers, we tend to focus on keeping things accurate, compliant, and clear. That includes:

• Linking your accounts: We connect your bookkeeping system with leading sales platforms such as Amazon, eBay, Etsy, Shopify, Wix, and many others. This ensures transactions flow smoothly into your accounts, reducing manual input and the risk of errors.
• Reconciling transactions: We make sure every sale is properly recorded, including platform charges, card processing fees, postage, refunds, discounts, and even gift vouchers, so your accounts reflect the real financial picture.
• VAT guidance: Whether you’re selling in the UK or overseas, we provide clear advice on how VAT rules apply to your business, from registration thresholds to cross-border sales, helping you avoid costly mistakes.
• Digital record-keeping: We check that your systems and processes meet HMRC’s digital requirements, keeping you compliant and ready for inspection.
• Year-end accounts: We prepare accurate year-end accounts and corporation tax returns on time, in line with current regulations, so you can be confident your obligations are met and deadlines won’t be missed.
• Tax planning: By looking ahead, we help you with tax planning and cashflow advice so you can make better business decisions.

For more details, see our Accounting Services or our page for Small Business Owners.

Ready to switch accountants?

Changing accountants is hassle-free with Mollan & Co.

We’ll handle the entire transfer, including liaising with your previous accountant and reviewing all current records to ensure accuracy. If there are any issues during the process, we’ll provide advice and guidance to resolve everything quickly.

To book a free initial review meeting, please use our online booking tool to meet with a qualified accountant or alternatively give us a call.

 

FAQs for E-commerce Businesses

Do you work with all e-commerce platforms?
Yes. We regularly support clients who sell on Amazon, eBay, Shopify, Etsy, Wix, and other online platforms. We make sure your accounts integrate smoothly so transactions are accurate, reconciled, and easy to manage.

How do you handle VAT for online sellers?
We provide tailored VAT guidance for both UK and overseas sales. That includes advice on registration thresholds, EU distance selling rules, and import/export VAT, helping you stay compliant without paying more than you need to.

Can you help with multi-currency sales?
Absolutely. If you’re selling internationally, we’ll ensure your reporting reflects real income and expenses in different currencies, giving you a clear picture of profitability across all markets.

What about seasonal sales peaks and quieter months?
E-commerce often comes with highs and lows. We help you plan cashflow, manage tax liabilities, and keep reserves in place so your business runs smoothly year-round.

Do you only work with established e-commerce businesses?
Not at all. Whether you’re just starting out or already running a multi-channel operation, we can provide the right level of support, from setting up systems to advanced tax planning.

Can you prepare my year-end accounts and tax returns?
Yes. We’ll prepare your annual accounts and corporation tax returns accurately and on time, making sure you meet every deadline and stay compliant with HMRC’s digital requirements.

What makes your e-commerce service different from a general accountant?
We specialise in e-commerce. That means we understand platform fees, payment gateways, VAT on international sales, and how to keep records aligned with HMRC’s Making Tax Digital rules. You won’t need to explain how Amazon settlements or PayPal fees work – we’re already on it.

Contact Mollan & Co Accountants Today to find out more

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