Single Nuclear Polymorphisms (SNPs) are the majority of genetic variations occurring in a genome and help in understanding the genetics behind many complex diseases. By knowing the function of SNPs, the human phenotypic variations can be well known. Identification of functional SNPs in a disease-related gene is still a challenge. In this work, using computational methods, we have analyzed the genetic variations which can affect the expression and functionality of NRL gene leading to many diseases. Out of 376 SNPs, 21 SNPs were filtered as nonsynonymous missense mutations related with humans in the particular gene. The tools used were SIFT, Polyphen-2, I-Mutant 2.0, SNPs&GO, PHD-SNP. Among these 21, 5 SNPs were predicted to be deleterious by all the tools. 5 mutations out of 21 were predicted deleterious by all servers with amino acid changes D15A, R66W, F21S, L160P and L194P while S50T is predicted tolerated by SIFT. L160P and S50T have been reported in some cases of retinitis pigmentosa. © Springer-Verlag Wien 2014.