Shopify stores order and payment data, but it does not issue an invoice that is legally valid in Turkey; that job is done by software integrated with the e-invoice (e-Fatura) or e-archive invoice system. The most common misconception we see in the stores we manage is the assumption that Shopify can issue invoices on its own. In reality, Shopify generates the order information, and the connected accounting software issues the invoice through a system approved by GİB (Turkey's Revenue Administration).
How Does the Invoicing Process Work in Shopify?
Invoicing in Shopify consists of three steps: the order is created in Shopify, the order data is transferred to the accounting/e-invoice system through an integration tool, and the invoice is issued in that system and reported to GİB. Shopify itself is only the first link in this chain.
These three steps can be handled by a single app or by two separate systems. General e-invoice integrators such as Entegra Bilişim only take over the invoice issuing step, while accounting software such as Paraşüt or Logo both issues the invoice and keeps stock and customer account movements on its own side. Which route you choose depends on whether you already keep your accounts in a piece of software.
Important: The amount shown on a Shopify "Draft Order" or on the order screen is not a legal invoice. For legal validity, the invoice must always be issued through a GİB-approved e-invoice/e-archive system. Skipping this step and presenting only the Shopify order record in place of an invoice causes serious problems in a tax audit.
Who Is Required to Use E-Invoices and E-Archive Invoices?
The e-invoice requirement applies to taxpayers above a certain annual turnover threshold; the general threshold is 3 million TL in gross sales revenue. Taxpayers below this threshold who are not registered for e-invoicing have been issuing their invoices as e-archive invoices through the GİB portal since 1 January 2026. Because the Revenue Administration (GİB) updates this threshold periodically, you need to confirm the current figure in GİB's own announcements.
An important detail for e-commerce: for businesses selling online, the e-invoice and e-archive requirement starts at a much lower level than the general threshold, at 500,000 TL in gross sales revenue (for 2025 revenue, the transition date is 1 July 2026). In addition, since 1 January 2026, taxpayers not registered for e-archive invoicing have also been issuing their invoices as e-archive invoices through the GİB portal regardless of the amount (taxpayers under the simplified method and on the business account basis have a 3,000 TL exemption until the end of 2026). This means that even a newly opened Shopify store has to issue e-archive invoices, even if it is below the general turnover threshold.
Two Ways to Connect Shopify to Your Accounting System
There are two basic ways to connect Shopify to invoicing and accounting: use an e-invoice integrator that only issues invoices, or connect to accounting/ERP software that manages orders, stock and customer account movements together.
If issuing invoices is all you need (because stock and customer accounts are already tracked in another system), a standalone e-invoice integrator is the lighter setup. If you want orders, stock and accounting in one place, connecting directly to accounting/ERP software such as Paraşüt, Bizim Hesap, Logo, DİA, Nebim, Odoo or SAP reduces data entry to a single point.
Which Accounting Software Connects to Shopify?
Most Shopify stores in Turkey connect to one of the following programs; we cover the setup steps for each on its own page.
Once you have decided which software to use, you can find the full setup steps in the relevant guide above; this page is meant to clarify the overall process and the legal requirements.
How Do You Customize the Invoice Template and Company Details?
The invoice template (logo, company name, tax number, contact details) is not edited in Shopify but in the settings of the e-invoice/accounting system you are connected to. Shopify sends the order data; the invoicing system determines how the template looks.
Some store owners try to change the invoice design from their Shopify theme; this is not possible. If you want your brand identity to appear on the invoice, you need to set it up in your accounting/e-invoice provider's panel.
Common Integration Errors
The three most common errors are, in order: VAT rates being defined inconsistently in Shopify and in the accounting system, customer accounts not being matched or created automatically for new customers, and invoices not being cancelled automatically when an order is returned or cancelled.
VAT inconsistencies mostly occur in businesses that sell products subject to different VAT rates in the same store; if the correct tax rate is not defined per product in Shopify, the wrong amount is passed to the accounting side. In the case of returns, if the integration does not cancel the invoice automatically, a sale that never actually happened keeps appearing in the accounting records.
A Risk to Avoid: Processing a return only in Shopify without cancelling the invoice in the accounting system creates a gap between the turnover you declare at the end of the period and your actual turnover. During setup, test that the return flow works simultaneously in both Shopify and the accounting system.
Observations from Nodus Works Projects
The most common problem we see in the projects we manage is businesses selling through e-commerce opening a store without realizing that, for e-commerce, the e-invoice and e-archive requirement starts at a much lower revenue level (500,000 TL) than the general threshold. This usually comes to light in the first tax audit and requires retroactive corrections. The second common observation is that when the VAT rate is left at the default in Shopify and people try to fix it by hand on the accounting side, that manual correction gets skipped after a while and incorrect invoices pile up.
Frequently Asked Questions
Question: Can Shopify issue invoices on its own?
Answer: No. Shopify stores order and payment data, but it does not issue e-invoices or e-archive invoices that are legally valid in Turkey. This is done through a GİB-approved e-invoice system or accounting software.
Question: What is the difference between an e-invoice and an e-archive invoice?
Answer: An e-invoice is issued between taxpayers registered with GİB and is mandatory for businesses above a certain turnover threshold. An e-archive invoice is issued to buyers who are not registered for e-invoicing (including end consumers); unregistered taxpayers below the threshold issue e-archive invoices through the GİB portal.
Question: When does the e-invoice requirement start for e-commerce sales?
Answer: For businesses selling online, the e-invoice and e-archive requirement starts at 500,000 TL in gross sales revenue (the general threshold is 3 million TL; for 2025 revenue, the transition date is 1 July 2026). You need to confirm the current threshold in GİB's official announcements.
Question: Which accounting software should I choose?
Answer: If you are small and want a quick setup, Paraşüt or Bizim Hesap; if you run multi-store retail, Nebim; at enterprise scale, SAP or Logo is a better fit. We cover the setup details of each in its own guide.
Question: Can I customize my invoice template in Shopify?
Answer: No, the invoice template is edited in the settings of the e-invoice or accounting system you are connected to. Shopify only transfers the order data to that system.
Question: Is the invoice cancelled automatically when I process a return?
Answer: The integration has to support this; not every integration tool supports automatic invoice cancellation. During setup, the return flow needs to be tested on both the Shopify and the accounting side.
Conclusion
Invoicing in Shopify has three parts: the order is created in Shopify, the data is transferred to the accounting system through an integration tool, and the invoice is issued through a GİB-approved system. Once you have decided which accounting software to use, you can find the full setup steps in the relevant guide. If your setup requires a custom integration, you can use Nodus Works' Shopify integration and custom app development service or contact us directly. Invoice and accounting integration delivers its real value when it is set up together with shipping and marketplace integrations; we cover the overall framework for all categories separately in our Shopify Integrations guide.
