The short answer is: You can't.
The UIPanel does not handle drawing of the primitives or 3d elements outside of NGUI widgets, which means that the shader won't know how to clip it.
You could possibly modify a shader to use a referenced UIpanel to determine clipping, but it's bound to be dodgy.
Alternatively, you can put the 3d stuff into a different layer with its own assigned camera, which has a smaller viewRect corresponding with the area you want to clip. This is tricky, but possible.
Does that help you?