Analysis of nucleotides flanking the initiation codons of human genes

Copyright information:Taken from "Leaky ribosomal scanning in mammalian genomes: significance of histone H4 alternative translation "Nucleic Acids Research 2005;33(4):1298-1308.Published online 1 Mar 2005PMCID:PMC552952.© The Author 2005. Published by Oxford University Press. All rights reserved () Preferred occupancy of positions around the initiation codons of 22 208 human mRNAs was evaluated and diagrammatically illustrated on a Plot Sequence Logo as described previously (–). Nucleotides found more frequently than others are indicated, with the size of the corresponding letter reflecting their frequency. Positions with no illustration indicate close-to-equal distribution of all 4 nt. () Occupancy of positions −3 and +4 in 22 208 human mRNAs. The left column and the top row indicate the fraction of genes with the indicated nucleotides at positions −3 and +4, respectively. The internal cells represent the 16 possible −3/+4 combinations. Nucleotide frequencies are depicted numerically and illustrated by triangles of corresponding sizes.