Hi,
Try to run upgrade.bat.
Do you see SEP 12.1 install packages under SEPM --> Admin --> Installed Packages?
If package are not listed then you can import them manually.
You can refer this article to learn how to import packages into the SEPM, this article is demonstrating how to import SEP 11 package but the same way you can try to import SEP 12.1 package.
If you faced any error while importing package let us know.
https://www-secure.symantec.com/connect/articles/how-import-sep-11x-package-sepm-121
If you are using SBE version then you won't see install pacakge tab & other features.
Check this article
Client Deployment Wizard Overview
https://www-secure.symantec.com/connect/articles/client-deployment-wizard-overview