To perform the entire laboratory activities on a centimeter limit scale electronic chip, the most important aspect is to fabricate a device which persist sensitive and selective for the delivery of fluids flow and have the ability to execute a fast mixing of distinctive chemicals and bio samples. To resolve this issues the current paper is one of the good struggle, therefore the objective was arranged in according to the scope of research such as; to design and fabricate a polydimethylsiloxane (PDMS) material made, micro channel and its structure characterization for the investigation of internal subterranean area. By using an AutoCAD software the channel was first designed, however for the fabrication process the design was transferred to mask. Starting from SU-8 resist the pattern was transferred, and then by using the polydimethylsiloxane (PDMS) the mold was fabricated by adopting a low cost photolithography technique. Finally by employing Hawk 3 D surface nanoprofiler the structure was characterized. In our forthcoming research the device will be tested for real biological samples using a simple hand-operated inoculation technique.