Nanopore sensing has been the most promising candidate of the next generation of sequencing as it requires no complex labeling or DNA amplification, and the long read length could substantially help the alignment and assembly of repetitive DNAs. However, the existing designs of solid-state nanopore sensors and the preparation strategies face significant challenges such as the scalability and reproducibility of fabrication, lack of control of translocation, and low specificity in read‐out signals. Here we introduce our bottom‐up approach based on confined nanoscale electrodeposition to prepare nanopore devices integrated with transverse self‐aligned electrodes for scaled up production. Our new fabrication strategy would enable accurate control of critical dimensions of the nanopore devices, and new ways for translocation control and recognition tunneling readout of sequence information of the biomolecules.