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Tonnage tax opting procedure ensures time-bound approval and procedural fairness under the updated legislative framework.
A qualifying company must apply in the prescribed form to the Joint Commissioner within the statutory window; the Commissioner may call for documents, must afford an opportunity of being heard before refusing, and must communicate a written order within a set time measured from the end of the processing quarter. On approval, the tonnage tax regime applies from the tax year in which the option is exercised, with transitional provisions for IFSC units and further clauses governing duration, cessation, renewal and a bar on re-entry.
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Exclusion of book profits: tonnage tax income is removed from MAT computation to preserve the presumptive shipping regime.
Clause 228(16) excludes the book profit or loss derived from the activities of a tonnage tax company, as defined in Clause 228(1), from the company's book profit for the purposes of section 206, thereby preventing MAT from applying to profits attributable to qualifying core and incidental shipping activities; the exclusion operates alongside detailed provisions on caps for incidental income, allocation of costs and depreciation, treatment of non qualifying ships, and transfer pricing adjustments.
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Capital gains on qualifying ships taxed under tonnage tax regime with WDV computed for block of qualifying assets.
Profits or gains on transfer of capital assets forming part of the block of qualifying ships are chargeable to income-tax, with capital gains computed under the capital gains provisions specified in the Bill. For that computation, references to "written down value of the block of assets" are to be read as the "written down value of the block of qualifying assets", and that WDV is to be determined by the method prescribed in sub-section (2) of Clause 229.
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Tonnage tax loss set off limited to shipping income; pre option losses deemed set off and apportionment must be reasonable.
Clause 230(2)-(4) (and mirror Section 115VM) deem pre option losses attributable to the tonnage tax business to have been set off against relevant shipping income while under the tonnage tax regime, bar their set off against non shipping income after opting in, and require any necessary apportionment to be made on a reasonable basis, creating documentary and evidentiary obligations and potential disputes over apportionment and the definition of relevant shipping income.
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Clause 230(1) creates a self contained tonnage tax computation by deeming all business losses, allowances and deductions to have been given full effect in their year of origin, prohibiting carry forward or set off of shipping business losses once under the tonnage regime, excluding general chapter based deductions from tonnage profits, and requiring written down values of assets to be computed as if depreciation had been claimed and allowed each relevant year.
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Depreciation under tonnage tax: explicit WDV allocation formulas clarify asset classification and continuity of depreciation claims.
Clause 229(1)-(7) mandates that, on entering the tonnage tax regime, depreciation be computed on the written down value attributable to qualifying ships by dividing the existing block WDV between qualifying and non qualifying assets using explicit proportional formulas; separate qualifying asset blocks are created, WDV is transferred proportionally upon reclassification, intra year depreciation is apportioned by days of use, and the resulting WDV blocks are deemed carried forward from the preceding year to preserve continuity.
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Allocation of shared costs and depreciation: apportionment on reasonable basis and fair proportion affects tonnage tax computations.
Clause 228(14) requires common costs attributable to the tonnage tax business to be allocated on a reasonable basis, with taxpayers maintaining records to support apportionment. Clause 228(15) requires depreciation for assets other than qualifying ships to be apportioned on a fair proportion determined by the Assessing Officer with reference to actual use. Both provisions mirror Section 115VJ, vesting discretion in the AO and preserving the objective of preventing tax arbitrage while increasing documentation and compliance burdens.
Act Rules Bills
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Tonnage tax regime: clarifies qualifying shipping income, market value inter company valuation, and related party anti avoidance adjustments.
Tonnage tax applies to qualifying shipping income measured by net tonnage, defined as profits from specified core shipping activities and prescribed incidental activities; incidental income above a prescribed threshold is excluded. Inter business transfers must be computed at market value, with assessing officer power to use reasonable bases in exceptional cases. Related party arrangements producing more than ordinary profits may be adjusted to reasonable levels. The Central Government may exclude activities or set limits by notification subject to parliamentary laying. Losses in tonnage computation are ignored.
Act Rules Bills
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Allocation of tonnage income: proportional or independent computation affects tax treatment of jointly operated qualifying ships.
Computation of tonnage income for jointly operated qualifying ships follows a two-step approach: where participating companies' shares are definite and ascertainable, income is allocated proportionately to each company; where shares are not definite and ascertainable, tonnage income for each operator is computed as if it were the sole operator. The rule aligns taxation with economic interest, creates documentary and compliance incentives, functions as an anti-avoidance measure, and may interact with cross-border tax rules, requiring clearer guidance on "definite and ascertainable" shares and documentation standards.
Act Rules Bills
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Tonnage tax regime: ships' taxable income computed by daily tonnage rates and aggregation, excluding deductions.
Clause 227(1)-(6) prescribes a ship wise tonnage tax: each qualifying ship's tonnage income equals its daily tonnage income multiplied by qualifying days, with daily rates set by a four tier slab linked to certified net tonnage. Tonnage includes certified physical tonnage and prescribed deemed tonnage for slot and sharing arrangements, rounded to the nearest hundred tons. A non obstante clause bars any deductions or set offs, making the computed tonnage income the exclusive tax base under the Part.
Act Rules Bills
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Tonnage tax scheme: deemed tonnage income treated as business profits, excluding actual shipping income under eligibility conditions.
Clause 226(7) mandates that tonnage income be computed under a separate formulaic provision and be deemed to be the profits chargeable under business income, while expressly excluding the actual "relevant shipping income" from tax once the tonnage computation applies; these effects are conditional on compliance with the Part's eligibility, option, separation, and record keeping requirements.
Act Rules Bills
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Tonnage tax scheme: elective presumptive taxation for shipping income, requiring separate accounting and exclusive computation under qualifying criteria.
The tonnage tax scheme is an elective presumptive regime requiring eligible companies operating qualifying ships to compute profits from that business exclusively under the tonnage basis; the tonnage tax business is treated as a separate business with independent computation and accounting, and companies not opting or ineligible must compute shipping profits under the normal provisions of the Act.
Act Rules Bills
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Qualifying ship definition governs tonnage tax eligibility by tying registration, certification, and operational use to tax benefit access.
The definition of qualifying ship in Clause 235(i) requires three operative conditions for tonnage tax eligibility: a minimum net tonnage, registration under the relevant shipping statute or an authorised foreign licence, and a valid certificate evidencing net tonnage. It lists explicit exclusions-vessels providing services normally provided on land, fishing vessels, factory ships, pleasure crafts, harbour and river ferries, offshore installations-and disqualifies vessels used for fishing beyond a specified threshold in a tax year, anchoring eligibility in maritime regulatory certification and operational use.
Act Rules Bills
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Place of effective management central to qualifying company status, restricting tonnage tax benefits to genuinely India-managed shipping firms.
The qualifying company for the tonnage tax regime must satisfy four cumulative conditions: be an Indian company; have its place of effective management in India-defined to include decisions made by executives as well as the board; own at least one qualifying ship; and have its main object as operating ships. Clause 235(h) consolidates these criteria within a broader definitional framework and references updated maritime legislation to clarify eligibility and reduce interpretive disputes.
Act Rules Bills
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Tonnage tax eligibility defined by operation status: owners and charterers qualify, long term bareboat lessors excluded.
Clause 226(1) treats a company as operating a ship or inland vessel if it owns or charters a vessel, including partial charters such as slot, space, or joint charters, and excludes companies that have chartered out vessels on bareboat charter or bareboat charter cum demise terms for periods exceeding three years, thereby distinguishing operational risk bearing operators from passive, long term financiers for purposes of the tonnage tax scheme.
Act Rules Bills
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Tonnage tax regime: option to compute shipping income on a tonnage basis with deeming treatment as business profits.
Clause 225 creates a self-contained tonnage tax regime for companies operating qualifying ships, allowing an option to compute income under its Part with a deeming provision treating that income as profits and gains of business; key operational questions concern the definition of qualifying ships, the option's exercise and lock-in mechanics, and interaction with loss set-off, allowances, and other tax measures.
Act Rules Bills
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Tonnage tax definitions: expanded, self-contained eligibility rules broaden coverage and tighten residency and exclusion tests.
Clause 235 consolidates and expands tonnage tax definitions by explicitly including inland vessels, embedding a detailed qualifying company test requiring Indian residency, ownership of qualifying ships, principal shipping business, and a specified place of effective management; it also defines qualifying ship with tonnage, registration/licensing and certification requirements and enumerated exclusions to prevent abuse.
Act Rules Bills
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Pass-through taxation preserves investor-level tax treatment of investment fund income while ring-fencing fund-level losses.
Clause 224 restates a pass-through regime: income from investments in a regulated fund is taxed in the hands of unit holders as if held directly, while business income remains taxable at the fund level. Business losses are ring fenced at the fund; other losses pass through subject to holding period conditions and transitional attribution of legacy losses to unit holders. Income retained by the fund is deemed credited to unit holders at year end and prescribed statements must be furnished to unit holders and tax authorities to secure transparency and enforcement.
Act Rules Bills
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Pass-through taxation for business trusts preserves income character and shifts tax consequences to unit holders with reporting duties.
The clause establishes a statutory pass-through mechanism under which income distributed by business trusts is deemed to retain its original character and proportion in the hands of unit holders, while subjecting the trust's total income to tax at the maximum marginal rate subject to specified withholding provisions; it also deems certain scheduled categories of distributed income taxable on distribution, carves out specified statutory exceptions, and imposes prescribed reporting obligations on payers to unit holders and tax authorities.
Act Rules Bills
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Pass-through taxation of venture capital income taxes investors as if invested directly, with reporting and deemed-credit safeguards.
Pass-through taxation requires that income arising to investors from venture capital companies or funds be taxed in the investor's hands as if invested directly, with the fund and payer furnishing prescribed statements to investors and tax authorities; undistributed income is deemed credited to investors at year-end in proportion to entitlement, while income already included on an accrual basis is not taxed again on actual payment; specified investment funds are excluded and key terms are defined in the schedule.

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Comparison of Section 39 "Computation of actual cost" between the Income-Tax Act, 2025 (as passed) and the Income-Tax Bill, 2025 (as originally introduced)

22 August, 2025

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Section 39 Computation of actual cost.

Income-tax Act, 2025 [As Passed]

At a Glance

Document considered: Clause 39 of the Income Tax Bill, 2025 (Old Version). It prescribes rules for computing the "actual cost" of an asset used in business or profession, setting out reductions, special circumstances for valuation, and the Assessing Officer's power to re-determine cost. It affects taxpayers claiming depreciation, buyers of formerly used assets, transferee companies in reorganisations, and tax authorities. Effective date or decision date: Not stated in the document.

Background & Scope

Statutory hook: Clause 39, Income Tax Bill, 2025 - titled "Computation of actual cost." The provision governs computation of the actual cost of assets used for business or profession for the purpose of determining allowable depreciation and consequential tax treatment. It sets reductions to actual cost for amounts met by others, input tax credits, certain duties, and subsidies/grants; prescribes exclusions for payments made otherwise than specified banking/online modes over a threshold; provides a formula for apportioning non-asset-specific subsidies; contains a Table of specified circumstances where a different actual cost determination applies; preserves Assessing Officer discretion to determine actual cost in specified cases; and defines "special modes of acquisition." No separate definitions section is present in the Bill text reproduced beyond what is included in the sub-clauses.

Statutory Provision Mode

Text & Scope

Clause 39(1) establishes that "actual cost" of an asset used for business/profession is the actual cost to the assessee reduced by: (a) any part of cost borne by another person; (b) GST paid where input tax credit has been claimed and allowed; (c) additional duty leviable u/s 3 of the Customs Tariff Act, 1975 where credit has been claimed and allowed under Central Excise Rules, 1944; and (d) any subsidy, grant or reimbursement relatable to acquisition received from Central/State Government, any authority established under law, or any other person.

Sub-section (2) excludes from actual cost any payment or aggregate payments exceeding Rs.10,000 in a day made otherwise than by specified banking/online modes. Sub-section (3) prescribes an apportionment formula for subsidies/grants not directly relatable to a particular asset: A x (B / C), where A = total subsidy not directly relatable, B = cost of the asset, C = cost of all assets in reference to which subsidy is received.

Sub-section (4) contains a Table of 13 specified circumstances where a different rule for actual cost applies - including transfers on amalgamation, demerger, inventory-to-capital conversion, gift/inheritance, use of own property, intra-group transfers (section 70 conditions), reacquisition, transfers back to previous owner where previous owner claimed depreciation, post-research use (section 33(3)), import of asset by non-resident and brought to India, corporatisation of recognised stock exchange, special treatment where deduction u/s 46 was allowed or becomes deemed income, and exclusion of interest relatable to post-use periods.

Interpretation

The text indicates an intent to exclude from depreciable "actual cost" amounts that have been effectively subsidised or already relieved through tax credits (GST/input credit, excise/Additional duty credits), or funded by third parties. The apportionment formula in sub-section (3) displays a ratio-based approach to allocate non-asset-specific subsidies across assets. The Table demonstrates legislative intent to retain continuity in cost basis on corporate reorganisations (amalgamation/demerger/holdco-subco transfers), and to prevent inflation of cost through certain transfers or reconstructive transactions. The provision gives the Assessing Officer discretionary power to determine actual cost where an asset was previously used, subject to conditions, signalling an anti-avoidance concern (prevent enhanced depreciation by buying used assets from related parties).

Exceptions/Provisos

Notable carve-outs in the Table: reacquisition (serial 7) allows the lower of original reduced cost or reacquisition price; transfers where previous owner claimed depreciation (serial 8) prescribe written down value in prior hands as the cost; where deduction u/s 46 was allowed, actual cost may be deemed nil (serial 12(a)). Interest paid in connection with acquisition excludes amounts attributable to periods after first put to use (serial 13). The Bill requires AO determination under prescribed conditions (sub-section (5)) and prior approval of Joint Commissioner for such determination (sub-section (6)).

Illustrations

  • Example 1 (amalgamation): An amalgamating company transfers a plant to an Indian amalgamated company in a scheme of amalgamation. The transferee's actual cost is the same as it would have been had the amalgamating company continued to hold it. (Consistent with Table serial 1.)
  • Example 2 (inventory converted to capital): Inventory converted into a capital asset is valued at fair market value on date of conversion, determined "in the manner as prescribed." (Table serial 3.)
  • Example 3 (gifted asset): A taxpayer receives machinery by inheritance; actual cost equals previous owner's actual cost reduced by depreciation allowable up to the immediately preceding tax year, computed as if the asset were the sole asset in the block. (Table serial 4.)

Interplay

The clause references interplay with: the GST/input tax credit regime ("relevant law"), Central Excise Rules, 1944, Customs Tariff Act, 1975 (section 3), and other sections of Income-tax law (section 33(3), section 46, section 70(1) conditions). Specific procedural rules for FMV determination are referenced as "as prescribed," indicating reliance on Rules or subordinate legislation. No circulars, notifications, or specific Rules are reproduced in the document.

Preliminary comparison - Key differences and practical impact

  • Terminology and cross-references to tax law: The passed Section 39 (Document 1) refers to "goods and services tax paid in respect of which credit of input tax has been claimed and allowed under the relevant law," whereas the Bill (Document 2) uses "goods and services tax paid in respect of which input tax credit has been claimed and allowed under the relevant law." The change is largely stylistic and does not appear to alter substance.
    • Practical impact: negligible.
  • Customs/Excise duty description: The passed Section 39 (Doc 1) references "duty of excise or additional duty leviable u/s 3 of the Customs Tariff Act, 1975 in respect of which a claim of credit has been made and allowed under the Central Excise Rules, 1944," while the Bill (Doc 2) refers only to "additional duty leviable u/s 3 of the Customs Tariff Act, 1975 in respect of which a claim of credit has been made and allowed under the Central Excise Rules, 1944 (51 of 1975)."
    • Practical impact: the passed version appears broader by explicitly stating "duty of excise or additional duty," which could capture a wider range of levies; the Bill's wording is narrower. This may affect whether certain excise levies are deducted from actual cost where credit has been claimed.
  • Aggregation/payment threshold phrasing: Doc 1 states "payment or aggregate of payments exceeding Rs.10000 in a day" while Doc 2 states "ten thousand rupees in a day." This is a formatting/wording difference only.
    • Practical impact: none.
  • Conversion of inventory wording: Doc 1: "Where inventory is converted into or treated as a capital asset." Doc 2: "Where inventory is converted into capital asset." Doc 1 adds "or treated as" - potentially broadening scope to assets treated as capital assets even without physical conversion.
    • Practical impact: Doc 1 could capture more situations where inventory is reclassified without physical conversion; Doc 2 may be slightly narrower.
  • Gift/inheritance depreciation wording: Doc 1 sets out a two-part reduction for assets acquired by gift/inheritance with explicit reference to depreciation actually allowed for TY beginning 1 April 1986 or earlier and depreciation allowable for tax years commencing on or after 1 April 1987 under this Act or the Income-tax Act, 1961. Doc 2 provides a single phrase: "Actual cost to previous owner as reduced by the depreciation allowable up to the immediately preceding tax year, as if such asset was the only asset in the relevant block of asset."
    • Practical impact: Doc 1 is more granular and ties reductions to specific historical tax year cutoffs; Doc 2 uses a single "up to immediately preceding tax year" standard. This may produce differences in the quantum of reduction for older assets.
  • Section 33(3) / related provisions language: Doc 1 (passed) states reduction where asset used after ceasing scientific research and "a deduction is allowable u/s 33(3)." Doc 2 (Bill) states reduction where such use occurs "and a deduction is made u/s 33(3)."
    • Practical impact: "is allowable" (Doc 1) may be broader than "is made" (Doc 2), potentially including situations where a deduction is permissible though not yet claimed. Doc 1 may therefore produce a wider application.
  • Section references in clause 12(b): Doc 1 reduces actual cost where deduction u/s 46 becomes deemed income "as per section 46(9)(b)." Doc 2 refers to "section 46(9)(b)" but couples text slightly differently across subclauses.
    • Practical impact: minor drafting variation; substance appears aligned.
  • Sub-section (5) and (6) differences: Doc 2 sub-section (5) states the AO "shall be determined by the Assessing Officer having regard to all circumstances of the case, subject to the following conditions" and lists conditions (a) & (b). Doc 1 sub-section (5) states the AO "shall be such amount as may be determined by the Assessing Officer having regard to all the circumstances of the case, where - (a) ... and (b) ..." - Doc 1 additionally excludes serial number 8 from the proviso in sub-section (5) by a later clause (5) prefaced with "Irrespective of anything contained in sub-section (4), other than serial number 8...". Doc 2 does not contain that explicit exclusion text.
    • Practical impact: Doc 1 clarifies that serial number 8 of the Table is not subject to the AO's re-determination power; Doc 2 lacks that carve-out, which may leave ambiguity whether the AO could redetermine cost even in serial 8 cases. Doc 1 thereby narrows AO discretion in that specific circumstance.
  • Definition placement and phrasing of "special modes of acquisition": Both documents define the term, but Doc 1 places the definition phrasing as "For the purposes of this section, 'special modes of acquisition' means acquisition - (a) ...; (b) ...; (c) ...", identically to Doc 2.
    • Practical impact: no substantive change.
  • Other drafting and specificity differences: Several clauses in Doc 1 include parenthetical references to the Income-tax Act, 1961 and specific subclauses and insert minor textual refinements (e.g., "as the case may be", "or under the Income-tax Act, 1961") that appear aimed at clarifying historical treatment.
    • Practical impact: largely clarificatory; a few refinements (noted above) may widen or narrow application in edge cases.

Practical Implications

  • Compliance and risk areas: Taxpayers must adjust asset cost for any third-party funding (subsidies/grants), and for tax credits (GST/input credit, excise/Additional duty credits). Where payments exceed Rs.10,000 in cash/unspecified modes on a day, those amounts are excluded from cost. Failure to reduce cost appropriately risks reassessment and disallowance of excess depreciation claimed.
  • Record-keeping/evidence: Documentation evidencing input tax credits, excise/Customs duty credits, subsidy/grant receipts and their allocation across assets (particularly where grants are not directly attributable) is essential. For instances of intra-group transfers, amalgamation/demerger approvals and scheme documents will be necessary to apply the specified Table entries. Where AO may re-determine cost, contemporaneous evidence showing commercial justification for transfers and absence of tax-avoidance motive will be material. For inventory-to-capital conversions, records to support FMV determination per prescribed method are required.

Key Takeaways

  • Clause 39 defines "actual cost" and mandates reductions for third-party funding, input tax/excise credits and subsidies/grants; it seeks to prevent artificial inflation of depreciable base.
  • A formulaic apportionment applies where subsidies/grants are not directly attributable to a particular asset.
  • The Table preserves continuity of cost on corporate reorganisations and prescribes special rules for gifts, inheritances, reacquisitions, intra-group transfers, and other specified circumstances.
  • AO has power to redetermine actual cost where the asset was previously used by another and transfer was mainly to reduce tax liability; such determination requires Joint Commissioner approval.
  • Strict record-keeping of grants, credits, transfer documents, and payment modes is necessary to support claimed actual cost and depreciation.
  • Where the clause refers to "as prescribed" for FMV or similar matters, subordinate rules are expected to provide methods - those rules are not reproduced here. Not stated in the document: the precise rules or form/procedure for FMV determination.

Full Text:

Section 39 Computation of actual cost.

Topics

Acts Income Tax