AFFYMETRIX INC
S-8, EX-99.3, 2000-12-27
COMMERCIAL PHYSICAL & BIOLOGICAL RESEARCH
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                                                                    EXHIBIT 99.3


                               SECOND AMENDMENT TO
                                NEOMORPHIC, INC.
                             1998 STOCK OPTION PLAN


The 1998 Stock Option Plan of Neomorphic, Inc. is amended as follows:

SUBSECTION 5(d) IS AMENDED TO READ AS FOLLOWS:

         5.       (d)      RIGHT TO EXERCISE. Each ISO shall become exercisable
and vest according to the terms and conditions established by the Board and
reflected in the written agreement evidencing the option (the "ISO Option
Agreement").

                           (i) Notwithstanding the preceding sentence, in the
         event of an Ownership Change (as defined below), the surviving,
         continuing, successor or purchasing corporation or parent corporation
         thereof, as the case may be (the "Acquiring Corporation"), may either
         assume the Company's rights and obligations under outstanding ISO
         Option Agreements or substitute for outstanding ISO Option Agreements
         substantially equivalent agreements with respect to the Acquiring
         Corporation's stock.

                           (ii) Any ISO not so assumed or substituted shall be
         immediately exercisable, and all unvested shares acquired upon exercise
         of such ISO shall be vested in full as of the date ten (10) days prior
         to the date of the Ownership Change. Any exercise or vesting that was
         permissible solely by reason of an Ownership Change shall be
         conditioned upon consummation of the Ownership Change. Any ISOs which
         are neither assumed or substituted for by the Acquiring Corporation nor
         exercised as of the date of the Ownership Change shall terminate and
         cease to be outstanding effective as of the date of the Ownership
         Change. Notwithstanding the foregoing, shares acquired upon exercise of
         an ISO prior to the Ownership Change and any consideration received
         pursuant to the Ownership Change with respect to such shares shall
         continue to be subject to all applicable provisions of the ISO Option
         Agreement or any agreement substituted for such ISO Option Agreement by
         the Acquiring Corporation except as otherwise provided in such ISO
         Option Agreement.

                           (iii) In the event a Recipient's Service is
         terminated for any reason other than for Cause (as defined in
         Subsection 5(h)(v)) after such assumption or substitution and within
         one year of such Ownership Change, the ISO shall become immediately
         exercisable and all unvested shares acquired upon exercise of such ISO
         shall be vested in full as of the date on which Recipient's service
         ends.
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                  For the purchases of this Plan, Ownership Change means any of
         the following: (A) the direct or indirect sale or exchange in a single
         or series of related transactions by the shareholders of the Company of
         more than fifty percent (50%) of the voting stock of the Company; (B) a
         merger of consolidation in which the Company is a party; (C) the sale,
         exchange or transfer of all or substantially all of the assets of the
         Company; or (D) a liquidation or dissolution of the Company.

                  Each ISO shall be subject to termination before its date of
         expiration as provided in Subsection 5(h).

SUBSECTION 6(c) IS AMENDED TO READ AS FOLLOWS:

         6.       (c)      RIGHT TO EXERCISE. Each NQSO shall become exercisable
         and vest according to the terms and conditions established by the Board
         and reflected in the written agreement evidencing the option (the "NQSO
         Option Agreement").

                           (i) Notwithstanding the preceding sentence, in the
         event of an Ownership Change (as defined below), the surviving,
         continuing, successor or purchasing corporation or parent corporation
         thereof, as the case may be (the "Acquiring Corporation"), may either
         assume the Company's rights and obligations under outstanding NQSO
         Option Agreements or substitute for outstanding NQSO Option Agreements
         substantially equivalent agreements with respect to the Acquiring
         Corporation's stock.

                           (ii) Any NQSO not so assumed or substituted shall be
         immediately exercisable, and all unvested shares acquired upon exercise
         of such NQSO shall be vested in full as of the date ten (10) days prior
         to the date of the Ownership Change. Any exercise or vesting that was
         permissible solely by reason of an Ownership Change shall be
         conditioned upon consummation of the Ownership Change. Any NQSOs which
         are neither assumed or substituted for by the Acquiring Corporation nor
         exercised as of the date of the Ownership Change shall terminate and
         cease to be outstanding effective as of the date of the Ownership
         Change. Notwithstanding the foregoing, shares acquired upon exercise of
         a NQSO prior to the Ownership Change and any consideration received
         pursuant to the Ownership Change with respect to such shares shall
         continue to be subject to all applicable provisions of the NQSO Option
         Agreement or any agreement substituted for such NQSO Option Agreement
         by the Acquiring Corporation except as otherwise provided in such NQSO
         Option Agreement.

                           (iii) In the event a Recipient's Service is
         terminated for any reason other than for Cause (as defined in
         Subsection 6(g)(v)) after such assumption or substitution and within
         one year of such Ownership Change, the NQSO shall become immediately
         exercisable and all unvested shares acquired
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         upon exercise of such NQSO shall be vested in full as of the date on
         which Recipient's service ends.


                  For the purchases of this Plan, Ownership Change has the same
         meaning given that term in Section 5(d). Each NQSO shall be subject to
         termination before its date of expiration as provided in Subsection
         6(g).


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