Heterogeneity is inevitable in enterprises due to their various input requirements.The usage of proprietary integration products results in the increased cost of enterprises.During the integration,the focus area has been found to often address only the functional requirements,while the non-functional requirements are side-stepped during the initial stages of a project.Moreover, the use of proprietary integration products and non-standards-based integration platform has given rise to an inflexible integration infrastructure resulting in adaptability concerns.Web services-based integration,based on open standards,is deemed to be the only feasible solution in such cases.This paper explains the performance analysis of enterprise integration in heterogeneous environments for the distributed and the transactional applications.The analysis presented in this paper is seen as a step towards making intelligent decisions well in advance when choosing the integration mechanism/products to address the functional as well as the non-functional requirements considering the future integration needs. Heterogeneity is inevitable in enterprises due to their various input requirements. The usage of proprietary integration products results in the increased cost of enterprises. During the integration, the focus area has been found to often address only the functional requirements, while the non-functional requirements are side-stepped during the initial stages of a project. Moreover, the use of proprietary integration products and non-standards-based integration platforms has given rise to an inflexible integration infrastructure resulting in adaptability concerns. Web services-based integration, based on open standards, is deemed to be the only feasible solution in such cases.This paper explains the performance analysis of enterprise integration in heterogeneous environments for the distributed and the transactional applications. The analysis presented in this paper is seen as a step towards making intelligent decisions well in advance when choosing the integration mechanism / products to address the functional as well as the non-functional requirements considering the future integration needs.