Table 5 Association between codon optimality and DNA/RNA sequence motifs
From: Analysis of the association between codon optimality and mRNA stability in Schizosaccharomyces pombe
tAIg | Percent optimal codons (cTE) | Percent optimal codons (nTE) | ||||||
|---|---|---|---|---|---|---|---|---|
Motif | Location | Rate | Greater | Less | Greater | Less | Greater | Less |
ACCCTACCCT | Promoter | Long half-life | 8.6e-07 | 1 | 4.2e-07 | 1 | 2.7e-06 | 1 |
CAACCA | Promoter | Short half-life | 1 | 1 | 1 | 1 | 1 | 1 |
CAGTCACA | Promoter | Long half-life | 7.2e-19 | 1 | 6.7e-18 | 1 | 3.4e-18 | 1 |
AACCAC | 5' UTR | Long half-life | 7.6e-10 | 1 | 3.3e-10 | 1 | 8.0e-10 | 1 |
ACCAAC | 5' UTR | Long half-life | 4.5e-12 | 1 | 4.5e-12 | 1 | 2.4e-10 | 1 |
CAACCA | 5' UTR | Long half-life | 3.0e-07 | 1 | 3.6e-10 | 1 | 7.5e-08 | 1 |
CCAACA | 5' UTR | Long half-life | 1.1e-08 | 1 | 2.3e-08 | 1 | 1.2e-07 | 1 |
ACTAAT | 3' UTR | Short half-life | 1 | 0.05 | 1 | 0.23 | 1 | 1 |
TATTTAT | 3' UTR | Short half-life | 1 | 0.03 | 1 | 0.52 | 1 | 1 |
TTAATGA | 3' UTR | Short half-life | 1 | 6.8e-06 | 1 | 1.1e-05 | 1 | 7.1e-03 |
ACCCTACCCT | Promoter | Fast synthesis | 2.1e-07 | 1 | 1.1e-07 | 1 | 2.1e-07 | 1 |
CAGTCACA | Promoter | Fast synthesis | 1.4e-18 | 1 | 5.9e-18 | 1 | 4.6E-18 | 1 |