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QuickBooks bookkeeping for ecommerce businesses

An ecommerce business is paid by the companies that collect its customers' money: your Shopify payouts, card gateways, buy now, pay later providers and marketplaces each send their own batches, net of their fees and any refunds. We work through every provider's payout report inside your QuickBooks file, so each bank deposit can be broken back into the sales, refunds and fees it holds.

Get a QuickBooks bookkeeping quoteAbout this service
  • By Book Keeping Pros
  • Sources checked 15 Oct 2026

What we keep in order for an ecommerce business

The work follows the money from each payment provider to the bank, and the stock from supplier order to delivery.

  • Deposits from your Shopify payouts, card gateways and buy now, pay later providers broken down from each provider's payout report into sales, refunds and fees, with fees booked only where the report shows them
  • Marketplace settlements compared with each marketplace's statement, and any part of a payout held back listed until it's released
  • Stock ordered from suppliers in QuickBooks, if your plan covers inventory tracking, so goods still on order show apart from goods received
  • Upfront payments to manufacturers before goods ship held against the order, with their treatment set by your accountant, until the supplier's bill arrives
  • Sales and costs for each product line marked with a class on plans that offer class tracking, so each line's results can be reported
  • Invoices for advertising, apps and subscriptions charged to the business card emailed to QuickBooks and linked to the card transactions they belong to
  • Each bank and card account the business uses reconciled to its statement, showing payouts still in transit and any errors for you to see

Not included

Linking your store or payment apps to QuickBooks, and running the store itself. We work from the reports the store and each provider produce, beside your bank feed.

Businesses in Non-Store Retailing (ANZSIC class 4310)

Actively trading businesses across Australia
24,869 businessesAustralian Bureau of Statistics, Counts of Australian Businesses, June 2025, checked 15 October 2026
Of those, classified as non-employing
17,968 businessesAustralian Bureau of Statistics, Counts of Australian Businesses, June 2025, checked 15 October 2026
Of those, with 1 to 4 employees
5,330 businessesAustralian Bureau of Statistics, Counts of Australian Businesses, June 2025, checked 15 October 2026

Businesses by main state or territory

These counts are for the ANZSIC class Non-Store Retailing, which covers businesses retailing goods without a shopfront or physical store. It includes internet-only retailers, mail-order sellers and other non-store sellers. Retailers with a physical shop are counted in other retail classes, even when they also sell online, so these figures are not a count of all online retailers.

  1. New South Wales8,863 businesses
  2. Victoria6,612 businesses
  3. Queensland5,290 businesses
  4. Western Australia2,029 businesses
  5. South Australia1,266 businesses
  6. Tasmania307 businesses
  7. Australian Capital Territory285 businesses
  8. Northern Territory95 businesses
Source: Australian Bureau of Statistics, June 2025. Counts of Australian Businesses, data cube 2: Businesses by main state by industry class by employment size ranges (8165DC02.xlsx). Checked 15 Oct 2026.

Businesses by number of employees

  1. Non-employing17,968 businesses
  2. 1 to 4 employees5,330 businesses
  3. 5 to 19 employees1,298 businesses
  4. 20 to 199 employees258 businesses
  5. 200 or more employees15 businesses
Source: Australian Bureau of Statistics, June 2025. Counts of Australian Businesses, data cube 2: Businesses by main state by industry class by employment size ranges (8165DC02.xlsx). Checked 15 Oct 2026.

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Ecommerce questions about QuickBooks

We're paid by several payment providers. How do you keep them straight?
Each provider's deposits are matched to its own payout report, so every amount in QuickBooks ties back to the sales, refunds and fees behind it. If a deposit and its report don't line up, we raise it with you.
Can QuickBooks show which product lines make money?
Where the plan you're on includes classes, each sale and each cost can carry a class for its product line, and reports can then be run by class. QuickBooks' own guidance is to keep the class list simple, so agree the list with your accountant first.
Our advertising and app invoices arrive by email. Can they go straight into QuickBooks?
Yes. Forward them by email to QuickBooks, which reads each into a transaction waiting for review. We then link each to the card charge it covers, or create an expense from it when there's nothing to link it to.
A provider is holding back part of our payouts. How does that show?
We record what the provider's report says was held back and track it until it reaches the bank, so it doesn't slip between payouts. If the report stops accounting for an amount, we tell you so you can take it up with the provider.
We pay our manufacturer before the goods ship. How is that recorded?
The payment sits against the order it's for, treated as your accountant instructs, until the goods arrive and the supplier's bill goes in. With inventory tracking on your plan, the stock shows as on order until it's received.

Sources

  1. Counts of Australian Businesses, data cube 2: Businesses by main state by industry class by employment size ranges (8165DC02.xlsx)

    Australian Bureau of Statistics. Actively trading businesses at 30 June 2025, released 16 December 2025. Checked 15 October 2026.

    Source: Australian Bureau of Statistics, Counts of Australian Businesses, including Entries and Exits, June 2021 to June 2025, licensed under CC BY 4.0 Licence: CC BY 4.0.

  2. Correspondence, GCCSA 2021 to GCCSA 2026 (CG_GCCSA_2021_GCCSA_2026.csv)

    Australian Bureau of Statistics. ASGS Edition 4, July 2026 to June 2031, released 22 July 2026. Checked 15 October 2026.

    Source: Australian Bureau of Statistics, Australian Statistical Geography Standard (ASGS) Edition 4, licensed under CC BY 4.0 Licence: CC BY 4.0.

  3. Connect a new bank account to Open Banking in QuickBooks Online (Australia)

    Intuit Australia Pty Ltd. Current at 16 October 2026, released 16 October 2026. Checked 16 October 2026.

    QuickBooks is a trademark of Intuit Inc. Licence: Intuit Australia legal terms (facts quoted with attribution, no endorsement implied).

  4. Reconcile an account in QuickBooks Online (Australia)

    Intuit Australia Pty Ltd. Current at 16 October 2026, released 16 October 2026. Checked 16 October 2026.

    QuickBooks is a trademark of Intuit Inc. Licence: Intuit Australia legal terms (facts quoted with attribution, no endorsement implied).

  5. Set up and track your inventory in QuickBooks Online (Australia)

    Intuit Australia Pty Ltd. Current at 16 October 2026, released 16 October 2026. Checked 16 October 2026.

    QuickBooks is a trademark of Intuit Inc. Licence: Intuit Australia legal terms (facts quoted with attribution, no endorsement implied).

  6. Get started with class tracking in QuickBooks Online (Australia)

    Intuit Australia Pty Ltd. Current at 16 October 2026, released 16 October 2026. Checked 16 October 2026.

    QuickBooks is a trademark of Intuit Inc. Licence: Intuit Australia legal terms (facts quoted with attribution, no endorsement implied).

  7. Upload your receipts to QuickBooks (Australia)

    Intuit Australia Pty Ltd. Current at 16 October 2026, released 16 October 2026. Checked 16 October 2026.

    QuickBooks is a trademark of Intuit Inc. Licence: Intuit Australia legal terms (facts quoted with attribution, no endorsement implied).