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GST Reconciliation Services in India

GST reconciliation compares accounting records with GST returns, e-invoice data, supplier information and electronic ledgers to identify mismatches before they become filing, ITC or notice issues. CorporateWalla provides GST reconciliation, exception reporting and corrective-action support based on the records available.

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Important: A reconciliation identifies differences; it does not automatically establish that an ITC claim or tax position is legally allowable. Each material difference must be evaluated under the applicable GST provisions.

What Is GST Reconciliation?

GST reconciliation is a structured comparison of data from multiple sources, such as:

  • Books of accounts
  • Sales register
  • Purchase register
  • GSTR-1
  • GSTR-3B
  • GSTR-2B
  • E-invoice/IRN data
  • E-way-bill data where relevant
  • Electronic credit ledger
  • Electronic cash ledger
  • GST portal data
  • Supplier/customer confirmations where required

The objective is to identify differences, classify their causes and determine what corrective action is appropriate.

Why GST Reconciliation Matters

A business can have differences between books and GST data because of:

  • Timing differences
  • Invoices reported in a different period
  • Credit/debit notes
  • Amendments
  • Missing supplier reporting
  • Incorrect GSTIN
  • Incorrect tax rate
  • Place-of-supply differences
  • RCM transactions
  • Import of goods/services
  • Blocked or ineligible ITC
  • Duplicate invoices
  • Accounting entries not reported in GST returns
  • E-invoice failures
  • Advances and adjustments
  • B2B/B2C classification issues

Not every mismatch is an error. A good reconciliation distinguishes valid timing differences from genuine compliance exceptions.

GSTR-2B Reconciliation

GSTR-2B is an important source for recipient-side ITC reconciliation, but it should not be treated as the sole test of ITC eligibility.

A robust ITC review may compare:

  • Purchase register
  • GSTR-2B
  • GSTR-3B ITC claimed
  • Supplier GSTIN
  • Invoice number/date
  • Tax amount
  • Credit/debit notes
  • Receipt of goods/services
  • Payment/other statutory conditions where relevant
  • Blocked-credit provisions

The final ITC position should be determined under the applicable GST law, not merely by matching a number in GSTR-2B.

GSTR-1 vs Books vs GSTR-3B

For outward supplies, reconciliation can compare:

  • Sales register
  • GSTR-1
  • E-invoice data
  • GSTR-3B outward-tax liability
  • Credit/debit notes
  • Advances where applicable
  • Amendments
  • Export/SEZ transactions

The purpose is to identify:

  • Under-reporting
  • Over-reporting
  • Period mismatches
  • Tax-rate differences
  • Invoice omissions
  • Duplicate reporting
  • Incorrect amendments

ITC Reconciliation

ITC reconciliation can identify:

  • Eligible ITC appearing in GSTR-2B but not recorded/claimed
  • ITC claimed in GSTR-3B but not appearing in GSTR-2B
  • Duplicate ITC
  • Supplier GSTIN mismatches
  • Credit notes not adjusted
  • Potential blocked/ineligible ITC
  • Import-related ITC
  • RCM-related ITC
  • Period/timing differences

An “unmatched” invoice is not automatically ineligible. It may require supplier follow-up or a review of the relevant reporting period.

E-Invoice Reconciliation

For taxpayers covered by GST e-invoicing, IRN data can be reconciled with:

  • Sales register
  • Invoice series
  • GSTR-1
  • Accounting software
  • E-way-bill data where relevant

This can identify:

  • Missing IRNs
  • Duplicate invoices
  • Cancelled IRNs still appearing in books
  • Invoice-number/date mismatches
  • Tax-value differences
  • Reporting-period differences

Vendor Reconciliation

Where vendor follow-up is part of the engagement, CorporateWalla can prepare an exception list showing:

  • Supplier GSTIN
  • Invoice number
  • Invoice date
  • Taxable value
  • GST amount
  • GSTR-2B status
  • Books status
  • Suggested action

Vendor follow-up is not a guarantee that suppliers will amend their returns or that the recipient will become eligible for ITC.

Reconciliation Output

Depending on scope, the client can receive:

ITC reconciliation

  • Matched
  • Missing in 2B
  • Appearing in 2B but not books
  • Potentially ineligible
  • Duplicate
  • Credit-note adjusted
  • Timing difference
  • Supplier follow-up required

Outward-supply reconciliation

  • Books vs GSTR-1
  • GSTR-1 vs GSTR-3B
  • E-invoice vs books
  • Missing/duplicate invoices
  • Tax-rate differences
  • Period differences

Management summary

  • Total matched value
  • Total exceptions
  • High-value exceptions
  • Suggested action
  • Responsible person/vendor
  • Target period for correction

GST Reconciliation vs GSTR-9C

GST reconciliation is a broader operational process.

GSTR-9C is a prescribed reconciliation statement for taxpayers to whom the applicable law requires it, subject to the current threshold and rules. See GST audit and GSTR-9C.

A business may perform monthly/quarterly GST reconciliation even when GSTR-9C is not applicable.

GST Reconciliation vs GST Return Filing

Return filing reports the taxpayer's GST position for a tax period.

Reconciliation is the supporting control process that identifies whether books, returns and portal data agree and what exceptions need action.

A business may use reconciliation before each return or as a monthly/quarterly control.

GST Reconciliation vs GST Audit

GST reconciliation is not automatically an audit.

Where a client specifically requires an audit, certification, assurance engagement or GSTR-9C-related work, the engagement scope and applicable legal requirements should be separately identified.

GST Reconciliation Pricing

GST reconciliation is scope-based.

Pricing depends on:

  • Monthly transaction volume
  • Number of GSTINs
  • Number of states
  • Number of vendors
  • ERP/accounting system
  • Frequency of reconciliation
  • E-commerce/export complexity
  • Historical backlog
  • Whether vendor follow-up is included

What Is Not Guaranteed

  • Reconciliation does not guarantee ITC eligibility.
  • A matched invoice does not automatically prove every ITC condition is satisfied.
  • Vendor follow-up does not guarantee supplier correction.
  • Reconciliation does not guarantee zero GST notices.
  • A clean reconciliation does not guarantee that the tax department will accept every position.
  • Reconciliation does not replace return filing, audit, certification or legal representation where separately required.

Transparent 3-tier pricing

Pick the speed and depth that matches your need. Same quality, same CA team — only the timeline changes.

ITC Review

Custom quote

Timeline: Quoted on monthly transaction volume

GSTR-2B vs purchase register vs GSTR-3B review
Credit/debit note review
Exception classification
Corrective-action report
Sales vs GSTR-1 vs e-invoice reconciliation
Vendor exception reporting
MOST POPULAR

Monthly

Custom quote

Timeline: Quoted on GSTINs, vendors and frequency

Books vs GST return reconciliation
GSTR-2B vs purchase register reconciliation
GSTR-1 / e-invoice / sales reconciliation
Vendor-wise exception reporting
Management summary
Annual reconciliation support

Multi-GSTIN

Custom quote

Timeline: Quoted on states, backlog and system complexity

Everything in Monthly Reconciliation
Multiple GSTINs and states
RCM / import / export / SEZ exception review
Historical backlog reconciliation
Year-end reconciliation for annual compliance
Return-adjustment / amendment support where separately engaged

Every price above is a professional fee, excluding GST and government charges. 50% on delivery.

GST reconciliation is quoted on scope rather than a single monthly fee, because the work depends on monthly transaction volume, number of GSTINs, states and vendors, the ERP or accounting system, frequency, e-commerce or export complexity, any historical backlog and whether vendor follow-up is included.

How it works

Step 1

Data collection

Collect books, registers, GST returns, GSTR-2B, e-invoice and ledger data.

Step 2

Data-format and completeness check

Check that the data received is complete and in a usable format.

Step 3

Books vs GST return reconciliation

Compare the books of accounts with the GST returns filed.

Step 4

GSTR-2B vs purchase register reconciliation

Compare the purchase register with GSTR-2B and ITC claimed in GSTR-3B.

Step 5

GSTR-1 / e-invoice / sales reconciliation

Compare the sales register with GSTR-1 and e-invoice data.

Step 6

Credit/debit note review

Review credit and debit notes on both the purchase and sales side.

Step 7

RCM / import / export / SEZ exception review

Review RCM, import, export and SEZ exceptions where relevant.

Step 8

Exception classification

Classify each difference, distinguishing valid timing differences from genuine compliance exceptions.

Step 9

Corrective-action report

Report the exceptions with suggested action.

Step 10

Return-adjustment / amendment support

Support return adjustments or amendments where separately engaged.

Step 11

Final reconciliation sign-off

Close the reconciliation for the period.

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Documents required

Sales register
Purchase register
GSTR-1
GSTR-3B
GSTR-2B
E-invoice/IRN report
E-way-bill report where relevant
Electronic credit/cash ledger
GST portal downloads
Credit/debit notes
Import documents where relevant
Export/SEZ documents where relevant
RCM workings
Accounting ledgers
Previous reconciliation reports

Why CorporateWalla®?

Monthly reconciliation

Regular comparison of books, GST returns and portal data.

ITC and sales reconciliation

GSTR-2B vs purchase register vs GSTR-3B review, and books vs GSTR-1 vs e-invoice data for outward supplies.

Vendor and e-invoice exceptions

Actionable vendor-wise mismatch reports where included, and identification of IRN/invoice mismatches.

Annual reconciliation

Support for year-end reconciliation and preparation of data required for annual compliance.

Frequently asked questions

It is the process of comparing books, GST returns, GSTR-2B, e-invoices and other GST records to identify and resolve differences.

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