A growing number of mutations within milk protein genes and genes associated milk protein biosynthesis are not classified and described in ways which facilitate the design and interpretation of experiments with the use of multiplex PCR or other high throughout screening techniques. The aim of the study was to process and catalog all available information on single nucleotide polymorphisms (SNPs) located within genes directly, indirectly or potentially associated with bovine milk protein biosynthesis. All records were divided into 3 groups of polymorphic sequences: milk protein genes, genes associated with milk protein genes regulation and genes potentially associated with milk protein biosynthesis. A database was constructed containing 339 SNPs within 49 genes. Among the 339 SNPs, 316 single nucleotide substitutions, 8 deletions, 5 repeats, 7 indels and 3 insertions were identified. All collected SNPs were described in such a way as to enable the automatic downloading of GeneBank records to specialized software and simultaneous design of PCR primers and allele specific probes used in microarray technology. It is believed that collection of SNPs presented in this study will serve as a reliable resource for studies on the genetic determination of milk protein biosynthesis variation and after wide population screening, also for paternity testing and evolutionary studies in dairy cattle.