Skip to main content

GST Audit & Certifications – By Chartered Accountants



GST audit would have to be periodically conducted on entities registered under GST by a Practising Chartered Accountant or GST officer to ensure that proper compliance is maintained. In this article, we look at the different types of GST audit and certifications that would have to be conducted or provided by a practising Chartered Accountant from time to time.

GST Annual Return

All entities required to file monthly GST returns are required to file GST annual return before 31st December of each financial year. Only Input Service Distributors, Casual Taxable Persons and Non-Resident Taxable persons are exempt from filing GST annual return.
Entities required to file GST annual return having an aggregate turnover of over Rs.2 crores in a financial year must get the annual GST accounts audited and certified by a practising Chartered Accountant.
Know more about GST Return Due Dates.

GST Input Tax Credit Claim under Special Circumstances

Chartered Accountant certificate would be required in case of input tax credit claim under special circumstances on the inputs held in stock or inputs contained in semi-finished or finished goods held in stock, or the credit claimed on capital goods.
For instance, a registered person is required to file FORM GST ITC-01 within 30 days of becoming eligible to avail input tax credit on existing stocks. In the details furnished in the declaration for the claim of input tax credit under special circumstances, Chartered Accountant certification would be required if the aggregate value of the claim on account of central tax, State tax, Union territory tax and integrated tax exceeds Rs. 2 lakhs.
In an input tax credit claim under special circumstances, where the tax invoices related to the inputs held in stock are not available, the registered person can estimate the amount based on the prevailing market price of the goods on the effective date. Such details provided by the taxpayer should be duly certified by a practising chartered accountant or cost accountant.
Know more about input tax credit under GST.

Special Audit Ordered by GST Officer

A special audit can be ordered by a GST Officer, not below the rank of Assistant Commissioner if at any stage of scrutiny, inquiry, investigation or any other proceedings believes that the value has not been correctly declared or the credit availed is not within the normal limits. In such cases, the GST Officer with the prior approval of the Commissioner can direct the taxpayer in writing to get his records including books of account examined and audited by a Chartered Accountant or Cost Accountant.
Once a special audit has been ordered and directions are issued in FORM GST ADT-03 to the registered person, the nominated Chartered Accountant is required to submit the audit report duly signed and certified by him to the Assistant Commissioner within a period of 90 days. In case of difficulty in completing the audit within the provided time period, the registered person or the chartered accountant for any material and sufficient reason, request for an extension of the period by an additional 90 days.

Sample Special Audit Order
Sample Special Audit Order

Comments

Popular posts from this blog

Income Tax Department Grapples with 9.7 Million ITR Backlog, Taxpayers Await Refunds

The Income Tax (I-T) Department is facing a significant backlog of over 9.7 million verified income tax returns (ITRs) for the Assessment Year (AY) 2025-26, according to the latest official figures. As of Sunday, November 2, 2025, while the department has successfully processed a substantial 6.72 crore (67.2 million) ITRs, a staggering 97,07,702 verified returns remain in the queue, causing anxiety among taxpayers, especially those expecting refunds. The data, sourced directly from the Income Tax Department’s official portal and reflected in a screenshot from November 2, reveals the scale of the task. The department has received 8,01,81,924 filed returns, of which 7,69,31,814 have been verified by taxpayers. The gap between verified and processed returns constitutes the current backlog. (Screenshot of the Income Tax Department portal showing ITR statistics as on November 2, 2025) This delay is particularly troubling for individuals who filed their returns around the July 31...

Form 10IEA Filing Requirements

Default Regime is New Regime for ITR Filing Form 10IEA Filing Requirements  ITR 1 - No Requirements to File Form 10IEA to Opt for old regime or re-entering to New Regime (No Switching Restrictions) ITR 2 - No Requirements to File Form 10IEA to Opt for old regime or re-entering to New Regime (No Switching Restrictions) ITR 3 - Form 10IEA Filing mandatory when opting for old regime and if opting again for New Regime in subsequent Year  (if opted old regime for one year and then opted for new regime in subsequent year then not eligible to opt old regime again means one time Switching option is there (Need to file Form 10IEA maximum 2 times only, First when you opt for old regime and Second when you opt for new regime in subsequent year and leaving old regime) (If Form 10IEA already filed for old regime for particular year then cant opt new regime in such year and vice-versa) ITR 4 - Form 10IEA Filing mandatory when opting for old regime and if opting again for New Regime in subse...

ðŸšĻ ITR REFUND ALERT – READ THIS BEFORE 31 DEC ðŸšĻ

Thousands of taxpayers are suddenly receiving this message 👇 👉 “Your ITR refund is on hold due to risk management discrepancies. File revised return within a week.” ðŸ’Ą Irony? ⏳ Income Tax Dept took 4+ months to identify the issue ⏰ And now gives taxpayers barely a few days to fix it ❓ Why no detailed email received? Because most of these are system-generated risk flags. Sometimes:  • Email goes to old registered ID • Lands in spam • Or only SMS/portal alert is triggered 👉 Always check the ITR portal → e-Proceedings / Worklist 📌 What does “ITR processing on hold” mean? It does NOT mean notice or scrutiny ❌ It means:  ðŸ”đ Refund claim looks unusual compared to data available with department ðŸ”đ Return is paused before issuing refund ðŸ”đ Taxpayer is given a chance to self-correct ⚠️ Common reasons refunds get flagged : ðŸ”đ TDS/TCS mismatch TDS claimed in ITR is higher than what appears in Form 26AS (employer/bank hasn’t deposited or corrected data yet) ðŸ”đ AIS vs ITR income mismat...