The clinical magnetic resonance scanner (field strength ≤ 3.0 T) has limited efficacy in the high-resolution imaging of experimental mice. This study introduces a novel magnetic resonance micro-coil designed to enhance the signal-to-noise ratio (SNR) and contrast-to-noise ratio (CNR), thereby improving high-resolution imaging in experimental mice using clinical magnetic resonance scanners. Initially, a phantom was utilized to determine the maximum spatial resolution achievable by the novel micro-coil. Subsequently, 12 C57BL/6JGpt mice were included in this study, and the novel micro-coil was employed for their scanning. A clinical flexible coil was selected for comparative analysis. The scanning methodologies for both coils were consistent. The imaging clarity, noise, and artifacts produced by the two coils on mouse tissues and organs were subjectively evaluated, while the SNR and CNR of the brain, spinal cord, and liver were objectively measured. Differences in the images produced by the two coils were compared. The results indicated that the maximum spatial resolution of the novel micro-coil was 0.2 mm. Furthermore, the subjective evaluation of the images obtained using the novel micro-coil was superior to that of the flexible coil (p < 0.05). The SNR and CNR measurements for the brain, spinal cord, and liver using the novel micro-coil were significantly higher than those obtained with the flexible coil (p < 0.001). Our study suggests that the novel micro-coil is highly effective in enhancing the image quality of clinical magnetic resonance scanners in experimental mice.