Additional file 5.

Results from repeated 3’UTR structure analyses, with less strict criteria for classification and excluding all ribosomal genes. Results from repeated analyses on 3’UTR structure, with less strict classification of gene groups and excluding all ribosomal genes. In addition to genes with above 95% of transcripts present in oocyte until blastula stage (original analysis), genes with above 70% of transcripts present in oocyte and 1-2 cell were also included as degrading. Likewise, in addition to genes with above 95% of transcripts present in blastula and gastrula stage (original analysis), genes with above 70% of transcripts present in gastrula alone were also included as activating. Blastula stage may contain both maternal and zygotic transcripts; therefore including this stage in the less strict criteria for classification resulted in a number of genes that fell into more than 1 category. Therefore the less strict classification included transcripts of high proportion in oocyte and 1-2 cell or gastrula. For genes regarded as stable, the required proportion of transcripts in each of the four developmental stages (oocyte, 1-2 cell, blastula and gastrula) was extended from 25 ± 15% to 25 ± 20%. a) Overview of number of genes with 3’UTR isoforms (y-axis) within the whole dataset, and within genes with degrading, stable and activating transcripts (x-axis). The bar to the left within each category represents the total number of genes for that category, and the bar to the right represents the corresponding number of genes with 3’UTR isoforms. Percentages of genes with 3’UTR isoforms within each group are indicated by the number on top of the bars. b) 3’UTR-lengths of degrading, stable and activating transcripts. Different letters represent significant difference in 3’UTR length. All data are shown as mean with SEM. N = 69, 57 and 29 for degrading, stable and activating transcripts, respectively. c) Proportion (%) of degrading, stable and activating transcripts that contain different polyadenylation motifs (AATAAA, ATTAAA, AGTAAA, TATAAA, CATAAA, GATAAA, AATATA, AATACA, AATAGA, ACTAAA, AAGAAA and AATGAA). d) Proportion (%) of degrading, stable and activating transcripts that contain more than one of the motifs shown in c). N = 69, 57 and 29 for degrading, stable and activating transcripts, respectively.

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Kleppe et al. BMC Genomics 2012 13:443   doi:10.1186/1471-2164-13-443