Why doesn't my Axes Plot in my GUI cut off at the boundaries I made?

For some reason when I create an axes in GUIDE and plot something on it, it shows up in the proper location on the gui but when I pan or zoom in to the axes with the tools I put into the tool bar the graph exceeds the limits of the axes boundaries and displays over other buttons in my GUI.

[Ben11]

Can you show the code you use to generate the plot in the axis? What if you use

set(yourAxisHandle,'XLim',[x-boundary],'XLim',[y-boundary]);

after you create the plot?