The aim of this study was to develop methods for determining the most significant contrasts in satellite ocean color data arising in the presence of a submesoscale eddy structure, as well as to determine the corresponding depths of the upper layer of the sea where these contrasts are formed. The research was carried out on the example of the chain of submesoscale eddies identified in the Tumen River water transport area in the Japan/East Sea. MODIS Aqua/Terra satellite data of the remotely sensed reflectance (Rrs) and Rrs band ratio at various wavelengths, chlorophyll-a concentration, and, for comparison, sea surface temperature (sst) were analyzed. Additionally, the results of ship surveys in September 2009 were used to study the influence of eddy vertical structure on the obtained remote characteristics. The best characteristic for detecting the studied eddies in satellite ocean color data was the MODIS chlor_a standard product, which is an estimate of chlorophyll-a concentration obtained by a combination of the three-band reflectance difference algorithm (CI) for low concentrations and the band-ratio algorithm (OCx) for high concentrations. At the same time, the weakest contrasts were in sst data due to similar water heating inside and outside the eddies. The best eddy contrast-to-noise ratio according to Rrs spectra is achieved at 547 nm in the spectral region of seawater with maximum transparency and low relative errors of measurements. The Rrs at 678 nm and associated products may be a significant characteristic for eddy detection if there are many phytoplankton in the eddy waters. The maximum depth of the remotely sensed contrast formation of the considered eddy vertical structure was ~6 m, which was significantly less than the maximum spectral penetration depth of solar radiation for remote sensing, which was in the 14–17 m range. The results obtained can be used to determine the characteristics that provide the best contrast for detecting eddy structures in remotely sensed reflectance data and to improve the interpretation of remote spectral ocean color data in the areas of eddies activity.