Doppler optical coherence tomography or optical Doppler tomography (ODT) has been demonstrated to spatially localize flow velocity mapping as well as to obtain images of microstructure of samples simultaneously. In recent decades, spectral domain Doppler optical coherence tomography (OCT) has been applied to observe three-dimensional (3D) vascular distribution. In this study, we developed a spectral domain optical coherence tomography system (SD-OCT) using super luminescent diode (SLD) as light source. The center wavelength of SLD is 835 nm with a 45-nm bandwidth. Theoretically, the transverse resolution, axial resolution and penetration depth of this SD-OCT system are 6.13 μm, 6.84 μm and 3.62 mm, respectively. By imaging mouse model with dorsal skin window chamber, we obtained a series of real-time OCT images and reconstructed 3D images of the specific area inside the dorsal skin window chamber by Amira. As a result, we can obtain the clear and complex distribution images of blood vessels of mouse model.