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Question
Asked 1 March 2023

What causes the smear below the band in electrophoresis?

When the PCR product was electrophoresed, such a band was visible and smear was seen under the band.
Cycle conditions were (1) 94.0°C for 3 min, (2) 94.0°C for 10 sec, (3) 55.0°C for 10 sec, (4) 72.0°C for 7 sec, (5) 72.0°C for 1 min, and (6) 20.0°C for 10 min.
The number of cycles is 40 cycles from (2) to (4).
The swimming time was 15 min.
Gels were 3% agarose gels.
I would like to know what causes such smears and how to improve them.
Hiroyuki Takata
Okayama University
Thank you so much for your answer.
Is this smear something that does not affect me in particular?
Also, is it possible to eliminate this smear?