We have an agarose electrophoresis unit in the lab, which is kind of small and holds 80ml of buffer and 30ml of agarose gel and takes a run time of around 3hrs. The problem of it is that the gel melts during electrophoresis, it starts melting from near the wells.
Why is it so? We saw that amount of buffer used to decrease, but we used to fill it up. But still the same problem.
Then we thought of keeping the whole unit in a tray of ice. The ice gradually melted, but still the unit was in ice cold water! and still the gel melts. The unit was kept on a raised platform in the tray, hence the bottom of the unit also was getting cooled. But how can the gel melt so easily? Is it a problem with the electrode? what can be done of the unit now, is it a waste??