Java SE
When most people think of the Java programming language, they think of the Java SE API. Java SE's API provides the core functionality of the Java programming language. It defines everything from the basic types and objects of the Java programming language to high-level classes that are used for networking, security, database access, graphical user interface (GUI) development, and XML parsing.
In addition to the core API, the Java SE platform consists of a virtual machine, development tools, deployment technologies, and other class libraries and toolkits commonly used in Java technology applications.
Java EE
The Java EE platform is built on top of the Java SE platform. The Java EE platform provides an API and runtime environment for developing and running large-scale, multi-tiered, scalable, reliable, and secure network applications.
http://docs.oracle.com/javaee/6/firstcup/doc/gkhoy.html v jednoduchosti povedané