Safari? Removing your existing Java applications? No. That won't happen.
What will happen is the Java run-time and the Java plug-ins that were part of Safari. You will be using the Oracle web site, and you'll be downloading and configuring and operating and managing the Java environment and the Java plug-ins for Safari and other browsers more directly, and usually with downloads from Oracle.
Apple deprecated Java a while back, and they're now finishing the work and the transition of support over to the folks at Oracle, and of securing OS X from attacks against stale versions of Java.