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Responding to Income Tax Notices for Incorrect Capital Gains Reporting in Your ITR

  • Writer: Bhavika Rajput
    Bhavika Rajput
  • Jun 26
  • 9 min read

Receiving an Income Tax Notice can be a daunting experience for taxpayers. While it doesn’t always indicate an issue, it is essential to understand why the notice has been issued, how to respond, and what steps to take to resolve the matter efficiently. Taxpayers may receive notices for a variety of reasons, ranging from simple discrepancies in their tax filings to more complex issues regarding capital gains, deductions, or mismatched documents. Let us understand the process, providing you with the necessary steps to respond effectively to an Income Tax Notice, with a particular focus on recent changes in the reporting of capital gains for Assessment Year (AY) 2025-26. Additionally, we will provide resources for keeping up with the latest tax updates to ensure you are always in compliance.

Table of Contents

Why You May Receive a Notice

Income Tax Notices can arise for a number of reasons, and while they are typically not a cause for immediate alarm, it’s crucial to understand why you might receive one. Here are some common reasons:


  • Discrepancies in Filed Returns: This can happen if the information you reported doesn’t match the data available with the Income Tax Department. For example, mismatches in income, deductions, or TDS credits could trigger a notice.

  • Underreporting of Income: If the department suspects you’ve underreported your income, you may receive a notice requesting clarification. This could include undeclared income from investments, side businesses, or other sources not reported in your return.

  • Unexplained Capital Gains: For individuals involved in the sale of assets like property or stocks, incorrect or incomplete reporting of capital gains can result in a notice. The Income Tax Department may ask for more details on the sale, including the sale price, acquisition cost, and other relevant details.

  • Excessive Deductions or Exemptions: If your claimed deductions or exemptions seem unusually high, or if you haven’t provided proper supporting documentation, the department may issue a notice to verify these claims.

  • TDS Mismatch: If the Tax Deducted at Source (TDS) claimed in your return doesn’t match the TDS deposited by your employer or other deductors, the department may issue a notice to rectify the mismatch.


It’s essential to respond promptly and accurately to avoid penalties and ensure that your tax filings remain in compliance with the law.


Steps to Respond to an Income Tax Notice

Responding to an Income Tax Notice requires careful attention to detail. Here’s a step-by-step guide to help you navigate the process:


  • Read the Notice Carefully: The first step is to understand the reason for the notice. Look for the section that specifies the type of notice and the issue the Income Tax Department is concerned with. Notices are categorized, such as under Section 143(1) for intimation or Section 148 for re-assessment.

  • Gather Required Documents: Depending on the nature of the notice, you will need to gather the necessary documentation. For example, if the notice is about capital gains, you may need to provide details about the sale transaction, including sale deeds, receipts, and TDS details.

  • Verify the Discrepancies: Check your tax return to confirm whether there was a genuine mistake or if the department has made an error. Compare the data with your bank statements, investment proofs, and other relevant documents.

  • File a Response: Once you’ve verified the details, you can respond to the notice either online or by submitting the documents physically to the Income Tax Department. For notices under Section 143(1), you can file an online response through the Income Tax Department’s e-filing portal. Make sure to provide accurate explanations or corrective action (e.g., filing a revised return if necessary).

  • Seek Professional Help if Needed: If the issue is complex, or if you are unsure about how to respond, it may be wise to consult a tax professional who can guide you through the process and ensure that your response is in line with the law.

  • Keep Records: Once you’ve filed your response, ensure you retain copies of all communications, documents, and filings in case of future queries or audits.


Recent Changes Affecting Capital Gains Reporting (AY 2025-26)

For Assessment Year 2025-26, there are important changes regarding the reporting of capital gains, particularly for the sale of assets such as property and stocks. Some of the key updates include:


  • Section 50C Adjustments: The Fair Market Value (FMV) of property is now more strictly accounted for, and taxpayers are required to report any discrepancies between the sale price and the stamp duty value (FMV). This could affect the capital gains calculations for property sales.

  • Updated Calculation of Long-Term vs Short-Term Capital Gains: For some asset classes, the definition of long-term and short-term capital gains has been adjusted, particularly in the case of securities and mutual funds. The revised holding period thresholds should be carefully considered when calculating capital gains.

  • Taxability of Cryptocurrencies: For those involved in crypto transactions, there has been greater clarification on how capital gains are taxed on cryptocurrencies. Taxpayers need to be careful about whether their crypto assets qualify as long-term or short-term and report accordingly.

  • Clarification on Tax Deducted at Source (TDS): New provisions require TDS to be deducted at the time of sale, which will directly affect the amount of capital gains reported and the applicable tax. This change is especially important for individuals selling high-value assets like real estate.


These changes require taxpayers to be more diligent in reporting their capital gains accurately. Ensuring that all relevant documentation, including sale agreements, TDS certificates, and proof of ownership, is correctly filed can prevent issues from arising with the Income Tax Department.


Resources for Latest and Updated Information

To stay informed about the latest tax updates, changes in the law, and notices, here are some valuable resources:


  • Income Tax Department Portal: Visit the official website of the Income Tax Department at incometax.gov.in for updates on tax laws, filing dates, and official notifications.

  • Press Information Bureau (PIB): The PIB often releases official statements and updates about tax-related matters. These can be accessed for the latest government announcements.

  • TaxBuddy Blog and Resources: TaxBuddy offers up-to-date blog posts, resources, and tips for dealing with tax-related issues, including responding to notices and understanding recent changes in tax law.

  • Professional Tax Consultants: Consulting with a qualified tax professional can help you understand the latest changes affecting your tax filings, especially when dealing with complex issues like capital gains or income mismatches.


Conclusion

Receiving an Income Tax Notice can be unsettling, but with a clear understanding of the process and the correct steps to respond, you can resolve the issue efficiently. It’s essential to carefully review the reason behind the notice, gather the required documentation, and respond promptly to avoid further complications. Recent changes to capital gains reporting for AY 2025-26 highlight the importance of staying updated and compliant with the latest tax regulations. For those uncertain about the process, seeking the help of a tax professional can make all the difference. Staying informed and organized will help ensure that you navigate the complexities of income tax notices smoothly.


FAQs

Q1: Why did I receive an Income Tax Notice? You may receive an Income Tax notice for various reasons, including discrepancies in your tax filing such as incorrect reporting of income, mismatched TDS, unexplained capital gains, or missing deductions. Notices may also be issued if the tax department finds anomalies or discrepancies in the data submitted, or if your return does not match the records available with them, such as TDS credits, bank interest, or salary data. It’s important to carefully review the notice to understand the specific issue and take corrective steps accordingly.


Q2: How should I respond to an Income Tax Notice?

To respond to an Income Tax notice, first, identify the type of notice you have received. Notices may be related to discrepancies, assessments, or requests for additional documentation. Gather all relevant documents, verify the discrepancies mentioned, and file your response either online through the Income Tax Department’s e-filing portal or by submitting the necessary documents to the concerned tax authority. If the issue is complex, seeking professional help from a tax expert or a CA is advisable to ensure proper handling and compliance.


Q3: What recent changes affect capital gains reporting for AY 2025-26?

For AY 2025-26, several changes have been made to the taxation of capital gains, including updates for long-term and short-term gains. Key changes include stricter reporting requirements for real estate transactions under Section 50C and clarification on how cryptocurrencies and digital assets will be taxed. These changes are meant to ensure more transparency and to prevent tax evasion. Taxpayers must now be more diligent in reporting the sale price, acquisition costs, and any applicable exemptions to avoid issues during assessment.


Q4: How can I track the status of my Income Tax Notice?

You can track the status of your Income Tax notice and file a response using the Income Tax Department's official e-filing portal. Log in with your PAN and assessment year details, and you will find a section dedicated to tracking notices. You can view any pending notices, along with their details, and check the status of your response or pending actions. You may also be able to download or upload documents as required by the department.


Q5: Can I appeal a decision if I disagree with the notice?

Yes, if you disagree with the notice or its contents, you can file an appeal before the Commissioner of Income Tax (Appeals). The appeal must be filed within the prescribed timeline, typically within 30 days from the receipt of the notice or assessment order. The appeal process allows you to present your case and provide any additional evidence to support your position.


Q6: Are there penalties for errors in my ITR filing?

Yes, errors in your ITR filing can result in penalties, interest on unpaid taxes, and delays in refund processing. Common errors such as incorrect reporting of income, missing deductions, or mismatched TDS credits can trigger penalties under sections 234A, 234B, and 234C. Filing a revised return can help correct these errors, but penalties may still apply if the delay or error was not rectified within the assessment year.


Q7: Can I file a revised return if I realize there's an error?

Yes, you can file a revised return if you realize that there are errors or omissions in your original filing. The revised return must be filed before the end of the assessment year. This allows you to correct mistakes, such as incorrect income reporting or missing TDS details. Filing a revised return ensures that your tax records are accurate, minimizing the risk of penalties or additional scrutiny from the tax authorities.


Q8: How can I resolve mismatched TDS details in my filing?

To resolve mismatched TDS details, first, ensure that the TDS amounts reported by your employer, banks, or other deductors match the figures shown in your Form 26AS. If discrepancies are found, you may need to contact the deductor to correct the TDS data in the system. If the issue persists or if the mismatch affects your tax calculation, you can file a revised return to correct the TDS details. It’s essential to ensure that the TDS details match before submitting your ITR to avoid delays in refund processing.


Q9: How do I handle issues with capital gains tax on property sales?

When selling property, ensure that you correctly report the sale price, acquisition cost, and any capital gains tax exemptions that may apply. If discrepancies arise, such as incorrect reporting of the property sale amount or missing documents related to the transaction, you can file a revised return. The tax on property sales is calculated based on long-term or short-term capital gains, so ensuring accurate reporting and the correct calculation of exemptions, such as under Section 54, is vital to avoid penalties and delays.


Q10: Can I request a refund if there is an overpayment of tax?

Yes, if you have overpaid taxes, you can request a refund by filing an accurate ITR. If your tax liability is lower than the taxes you’ve already paid (via TDS or advance tax), the Income Tax Department will process your refund after verifying your return. Refunds are generally issued after the ITR is processed, and you can track the status of your refund through the e-filing portal.


Q11: What should I do if my refund is delayed?

If your refund is delayed, check the status using the Income Tax Department’s e-filing portal. Sometimes refunds may be delayed due to mismatches in TDS, errors in your ITR, or discrepancies in your bank details. If there is no update or if the delay is prolonged, you can raise an issue through the Income Tax portal or consult with a tax professional for further assistance.


Q12: How do I resolve a notice related to mismatched income?

If you receive a notice for mismatched income, compare your reported income with the information available in your Form 26AS or other income documents like Form 16. The notice may point out discrepancies such as unreported income or higher income than what was filed. In such cases, gather the correct documents, including salary slips, bank statements, and investment proofs, and file a revised return with the accurate details. You can also respond to the notice through the Income Tax Department's portal if further clarification is needed.


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