The technology of PCB was used to fabricate the chip mould, and the microfluidic electrophoresis chip was fabricated with PDMS material. The fiber integrated on the chip was used as the transmission medium, so the light spot size was near the depth of microchannel. The detection sensitivity was improved, and the optical focusing system was spared. The fabrication process, sealing methods and structure characteristic of PDMS microfluidic electrophoresis chips were discussed. The experiment was achieved by using the fabricated chip to separate FITC fluorescein and FITC-labeled amino acid mixture reagent, and the feasibility of the chip was validated.