Then used features to deploy the pages and worked like charm :)
The integration done :)
- Added each page within master page.
- used ContentPlaceHolderMain for displaying the pages.
- When integrating frame and iframe gave some problems.
- controls were accessible using document.getElementById(), rather then document.formname.elementName.[even within window.opener]
- Since the controls were simple html control need not to use <%=.ControlID%>
- have to remove runat="server" from <Form>