A periodic array of nanoholes was fabricated via the self-assembly of a polystyrene(PS)-b-poly(methyl methacrylate) (PMMA) block copolymer (BCP) on a silicon substrate and selective etching of the PMMA moieties. Silver nanorods (AgNRs) were then selectively deposited in the nanoholes by a galvanic displacement reaction where the pattern was hexagonally aligned according to the template. The diameter of AgNRs was controlled by changing the immersion time. Optical measurements of the AgNR arrays revealed that the extinction peak was split into two because of the electromagnetically induced transparency effect. In addition, the AgNR arrays showed a surface-enhanced Raman scattering response and were successfully transferred from a silicon substrate to a transparent and flexible polymer film while retaining the rod arrangement.