You can replace the \framebox with a \makebox, but I wanted so see how things were fitting in the space. You can play with the \parbox widths, but you will always get a big gap on the left side of the equations.
\documentclass{article} \usepackage{amsmath} \begin{document} \noindent \framebox[\textwidth]{ \parbox{1.5in}{ \begin{align} A&=B\ C&=D\ A&=B\\ C&=D\\ E&=F \end{align}} \hfill$\Rightarrow$\hfill \parbox{1.5in}{ \begin{align} a&=b\ c&=d\ a&=b\\ c&=d\\ e&=f \end{align}} } \end{document}