I submitted a journal paper to a Springer journal (Computer Science), and it is still under review for a year. I submitted the fourth revision recently. As it is taking more time than expected and I wanted to get some publication soon, I extracted a part of it and submitted to an IEEE conference. The conference paper got accepted now and published at IEEExplore. Now when I check the overlap between my journal submission and the conference paper using some online tools I can see that they have 14% overlap (including all the references). But my entire conference paper is from my journal without rephrasing. So if I calculate the overlap in the other way I can get over 70% of overlap.
So my question is what will happen to my journal submission? Even if it is accepted will it get rejected at some point (may be at the publishing stage)? What can I do to publish it without any problem?