Table 2.
Structural gene features of A. thaliana genes for the four promoter classes.
| Gene sets | All genes | Only TATA-box | Only TC[-39,-26]-PLMs | Only TATAΔ-PLMs | [-39,-26]-PLM-less | |
|---|---|---|---|---|---|---|
| Length median | Gene | 2293 | 1936 (5e-23) | 2385 (8e-8) | 2293 (NS) | 2334 (2e-7) |
| 5'UTR | 158 | 112 (7e-38) | 175 (3e-5) | 161 (NS) | 173 (9e-10) | |
| CDS | 1086 | 966 (5e-14) | 1185 (3e-10) | 1071 (NS) | 1119 (1e-4) | |
| All introns | 588 | 521 (1e-4) | 605 (NS) | 588 (NS) | 614 (NS) | |
| Percentage | Intron-less | 18.8 | 24.5 (4e-9) | 16.7 (NS) | 17.5 (NS) | 17.1 (NS) |
Structural gene features have been assigned by querying the FLAGdb++ database [59]. For median length data, we performed two one-sided Wilcoxon tests allowing the identification of enrichment in wide (bold) or in compact gene structures (underlined) in a set of genes compared with all the other genes, i.e. genes within the whole gene set minus genes within the considered gene set. For intron-less gene percentages, we performed two one-sided Fisher exact tests allowing the identification of higher (bold) or lower (underlined) percentages in a gene set in comparison with all the other genes. NS indicates a non-significant difference. P-values in parenthesis are less than 5% with the Bonferroni correction. Both the first intron and 3'UTR lengths are never biased (data not shown).