If you want to have the section number of a reference, you have to use tricks, e.g. the zref package. There is already a solution to a similar question Extract Section number from Equation reference, however, so the merits should go to Werner ;-)
My version sets a special label using zref capabilities, however, you have to use \label{eq:eq1} and \localspeciallabel{eq:eq1} both, but I wrapped it into a common \commonlabel{eq:eq1} command.
The reference to the section is done with \eqsecref{eq:eq1} etc. I changed the name from \eqref, since there is already a command with that name in amsmath package.
\documentclass{article}
\usepackage{zref}
\makeatletter
\zref@newlist{specialreflist}
\zref@newprop{section}{\arabic{section}}
\zref@addprop{specialreflist}{section}
\newcommand*{\localspeciallabel}[1]{\zref@labelbylist{#1}{specialreflist}}%
\newcommand*{\eqsecref}[1]{%
% Do formatting of number here or outside
\zref@extractdefault{#1}{section}{??}
}%
\makeatother
\newcommand{\commonlabel}[1]{%
\label{#1}%
\localspeciallabel{#1}%
}%
\begin{document}
\section{section 1}\label{sec:first}
\section{section2}\label{sec:second}
\begin{equation}\commonlabel{eq:eq1}
1+1=2 \\
\end{equation}
\section{section 3}%\label{sec:three}
\begin{equation}\commonlabel{eq:eq2}
\sqrt{2} \approx 1.414 \\
\end{equation}
From equation \ref{eq:eq1} in section \eqsecref{eq:eq1} it is clear that\ldots, whereas equation \ref{eq:eq2} in section \eqsecref{eq:eq2} shows that\ldots
\end{document}
