A novel method for determining the non-CDS region by using error-correcting codes

Abstract

Our main motivation question is "Is there any relation between the non-coding region and useless error- correcting codes?". Then we focused CDS and non-CDS areas instead of exon and intron, because CDS involves in process of synthesis a protein and is involved by exons. We get the data of the genes from NCBI [21]. In this study, we introduce the method Fi-noncds that is used for determining the non-CDS region by using error-correcting codes. We obtained that the error-correction codes that can't correct any codes named zero error- correcting code, placed in non-CDS areas, densely. This result shows that non-CDS regions (non-coding areas in DNA) match zero error-correcting codes (useless error-correcting code). Frame lengths 7,8,9 and 10,11,12,13 and 14 were tested by the method. Optimal result for selected genes (TRAV1-1, TRAV1-2, TRAV2, TRAV7, WRKY33, HY5, GR-RBP2) is frame length 8, n = 7, k = 2, dnaNo = 1. Moreover, optimal results of the algorithm Fi-noncds matched the best sequence length 8 as in [1].