Table 1.
Features of unique genes and their promoter
| All other nuclear genes | U{1:0}E genes | U{1:1} genes | U{1:m} genes | |
|---|---|---|---|---|
| A. thaliana | ||||
| Mean intron number | 4.28 | 0.98 | 5.01 | 4.33 |
| Mean protein size | 392.88 | 133.53 | 318.05 | 318.75 |
| Median protein size | 352.00 | 107.00 | 262.00 | 249.50 |
| Mean intron number/100 aa | 1.09 | 0.73 | 1.57 | 1.35 |
| TATA-box presence | 18.8% | 26.8% | 10.3% | 11.9% |
| TELO-box presence | 10.9% | 10.0% | 15.2% | 14.7% |
| SORLIP2-box presence | 11.9% | 14.1% | 16.1% | 15.2% |
| CAAT-box presence | 26.2% | 27.7% | 34.9% | 40.3% |
| O. sativa | ||||
| Mean intron number | 3.85 | 0.85 | 4.89 | 4.10 |
| Mean protein size | 406.06 | 142.82 | 321.15 | 319.10 |
| Median protein size | 362.00 | 117.00 | 262.00 | 266.00 |
| Mean intron number/100 aa | 0.95 | 0.60 | 1.52 | 1.28 |
| TATA-box presence | 17.7% | 16.9% | 4.1% | 7.0% |
| TELO-box presence | 9.1% | 6.4% | 11.0% | 12.9% |
| SORLIP2-box presence | 38.1% | 31.4% | 41.2% | 36.9% |
| CAAT-box presence | 34.5% | 33% | 38.3% | 31.2% |
Only genes with CDS fully covered by transcripts (EST and/or cDNA) were used for the determination of intron numbers and protein sizes. TFBS in promoter regions were searched for only in promoters of genes with a UTR longer than 50 nucleotides as shown by at least one cognate transcript. The complete nuclear gene set minus the 3 classes of unique genes defines the "All other nuclear genes" class.