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Bookkeeping for Ecommerce Sellers: A UK Guide

Ecommerce bookkeeping can look simple because money arrives in the bank automatically. In reality, platform fees, refunds, stock, shipping, VAT and payment processors can make the records more complex than a standard service business.

By Julia Pritchard Published 6 June 2026 3 min read

Ecommerce bookkeeping can look simple because money arrives in the bank automatically. In reality, platform fees, refunds, stock, shipping, VAT and payment processors can make the records more complex than a standard service business.

Record gross sales, fees and refunds

Bank deposits from platforms are usually net of fees. Good bookkeeping separates sales, fees, refunds and other adjustments.

  • Shopify, Amazon or Etsy reports
  • Stripe and PayPal statements
  • Refund and chargeback records

Track stock and cost of sales

Profit depends on more than revenue. Product costs, shipping, packaging and stock movements need attention.

  • Supplier invoices
  • Import costs and duties
  • Stock purchases and adjustments

Watch VAT and marketplace rules

VAT treatment can vary depending on where customers are, what is sold and which platform handles the transaction.

  • Check VAT registration position
  • Review marketplace reports
  • Ask for advice on cross-border sales

Reconcile payment processors

Payment processors often deduct fees before paying out. Reconciling only the bank deposit can hide costs and distort sales.

  • Match payout reports to bank deposits
  • Record fees separately
  • Check reserve balances

Review margins monthly

Ecommerce businesses can grow sales while margins shrink. Monthly bookkeeping should show the real position.

  • Gross profit by product type
  • Ad spend and fulfilment costs
  • Cash tied up in stock

Key takeaway

For ecommerce, the bank deposit is not the sale. The platform report tells the full story.

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Julia Pritchard, AAT Level 1 & 2 Certificate in Bookkeeping

Julia Pritchard

AAT Level 1 & 2 Certificate in Bookkeeping

Julia runs The Bookkeeping Co., helping UK small businesses, sole traders, freelancers and small companies keep their books tidy, their VAT returns on time and their tax bills predictable.

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