0001047469-11-006986 Sample Contracts

SENOMYX, INC., Issuer AND U.S. BANK NATIONAL ASSOCIATION, Trustee
Indenture • August 5th, 2011 • Senomyx Inc • Services-commercial physical & biological research • New York

INDENTURE, dated as of August 5, 2011, among SENOMYX, INC., a Delaware corporation (the “Company”), and U.S. BANK NATIONAL ASSOCIATION, as trustee (the “Trustee”):

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SENOMYX, INC. and , As Warrant Agent FORM OF COMMON STOCK WARRANT AGREEMENT Dated As Of
Common Stock Warrant Agreement • August 5th, 2011 • Senomyx Inc • Services-commercial physical & biological research • New York

COMMON STOCK WARRANT AGREEMENT (“Agreement”), dated as of between SENOMYX, INC., a Delaware corporation (the “Company”) and , a [corporation] [national banking association] organized and existing under the laws of and having a corporate trust office in , as warrant agent (the “Warrant Agent”).

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SENOMYX, INC. and , As Warrant Agent FORM OF PREFERRED STOCK WARRANT AGREEMENT Dated As Of
Preferred Stock Warrant Agreement • August 5th, 2011 • Senomyx Inc • Services-commercial physical & biological research • New York

PREFERRED STOCK WARRANT AGREEMENT (the “Agreement”), dated as of between SENOMYX, INC., a Delaware corporation (the “Company”) and , a [corporation] [national banking association] organized and existing under the laws of and having a corporate trust office in , as warrant agent (the “Warrant Agent”).

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SENOMYX, INC. and , As Warrant Agent FORM OF DEBT SECURITIES WARRANT AGREEMENT Dated As Of
Debt Securities Warrant Agreement • August 5th, 2011 • Senomyx Inc • Services-commercial physical & biological research • New York

DEBT SECURITIES WARRANT AGREEMENT (“Agreement”), dated as of between SENOMYX, INC., a Delaware corporation (the “Company”) and , a [corporation] [national banking association] organized and existing under the laws of and having a corporate trust office in , as warrant agent (the “Warrant Agent”).

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