The pay gap for part-time employees increased this year from 5 to 12 %.
53% of civil servants are women, but are in a minority in middle and senior management positions, although the proportion in senior roles has increased on 2009.
Speaking to HR, Fawcett Society policy and campaigns officer Preethi Sundaram said: "Against the backdrop of the most severe spending cuts Britain has seen since World War 2, women’s already existing economic inequalities are only set to worsen.
"Closing the gender pay gap requires leadership by government and a concerted effort by employers to check that they are paying women and men fairly, as well as action to provide a more flexible working environment which will support both male and female employees in juggling home and work commitments."
The news came as CEOs at several multinational organisations formed an alliance to increase the number of women on boards to 30 over the next 5 years.
The 30% Club includes the chairmen of Lloyds, HSBC, and Aviva.
Speaking to HR, Aviva’s group HR director, John Ainley, said there was a business case for company was fully behind efforts to address the shortage of women on company board, saying: "At Aviva, we believe that balanced leadership and diverse teams make more successful business."