Spatial analyses of mono, di and trinucleotide trends in plant genes.

ABSTRACT: Genomic DNA sequences display compositional heterogeneity on many scales. In this paper we analyzed tendencies and anomalies in the occurence of mono, di and trinucleotides in structural regions of plant genes. Representation of these trends as a function of position along genic sequences highlighted compositional features peculiar of either monocots or eudicots that were remarkably uniform within these two evolutionary clades. The most evident of these features appeared in the form of gradient of base content along the direction of transcription. The robustness of such a representation was validated in sequences sub-datasets generated considering structural and compositional features such as total length of cds, overall GC content and genic orientation in the genome. Piecewise regression

SUBMITTER: Porceddu A 

PROVIDER: S-EPMC3148226 | biostudies-literature | 2011

REPOSITORIES: biostudies-literature