I created a simple animation in geogebra, two intersecting lines rotating around fixed points. I want to trace the paths of the vertex points of these lines. I mean is there a way when the animation is running, I can trace the path(s) of points (E and C) or (B and F) or other such combinations or trace the paths of all circumferencial points.
How can I do that 
As I understand you want certain vertices to leave trails as they change their position. You can do it by right-clicking on the vertex and checking the "Trace On" option. Now the vertex will leave traces of it's colour on the canvas.