Table 2 Consensus binding sites corresponding to GO terms in the biological process branch of the Gene Ontology. For each GO term we display either the consensus sequence obtained from wconsensus, or the longest motif associated to the term if the consensus sequence was not significant enough as defined in the text. The third column is the logarithm of the expected frequency of the alignment as given by wconsensus, if exists. The fourth column contains the number A of motifs which were used in the alignment and the total number B of motifs associated to the term in the format A/B. For this table the data obtained with PAM1 and PAM10 are considered together.
actin filament-based process | GGGATTA | - | 1/1 |
|---|---|---|---|
ATP metabolism | CCGTCCC | - | 1/1 |
biosynthesis | CGCACG | - | 1/1 |
cell growth and/or maintenance | CTTCA | - | 1/1 |
cell motility | AGGGG | - | 1/2 |
defense response | AGGAA | - | 1/1 |
development | CCCC | -32,3389 | 16/16 |
DNA metabolism | TTCCCGC | -35,3236 | 6/7 |
DNA replication and chromosome cycle | TTCCCGCG | -17,6184 | 4/4 |
DNA replication initiation | GCGCGAAA | - | 1/1 |
enzyme linked receptor protein signaling pathway | AGGGGG | - | 1/1 |
epidermal differentiation | AGGCA | - | 1/1 |
frizzled-2 signaling pathway | GCTGGAGA | - | 1/1 |
glycoprotein catabolism | CTGACCTA | - | 1/1 |
heterophilic cell adhesion | CTAAACTC | - | 1/1 |
immune response | GAAAC | - | 1/1 |
intracellular protein transport | CCACGTC | -7,62462 | 2/2 |
L-amino acid transport | ACTTTG | - | 1/1 |
macromolecule catabolism | GACTC | - | 1/1 |
metabolism | CGGAAG | - | 1/2 |
metabolism | CGGGCCCG | - | 1/2 |
mitotic cell cycle | TCCCGCCA | - | 1/1 |
muscle development | CCAAG | - | 1/1 |
negative regulation of cell growth | AACGACT | - | 1/1 |
nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism | AACGG | - | 1/4 |
nucleosome assembly | GGCTCT | -92,8905 | 27/40 |
organogenesis | ACCCCCCC | - | 1/2 |
perception of chemical substance | TCTAA | - | 1/1 |
phototransduction | AAGRGGCC | -12,0169 | 6/6 |
pinocytosis | CTTACGA | -7,62462 | 2/2 |
potassium ion transport | CCAAG | - | 1/1 |
protein biosynthesis | CGGAAG | - | 1/1 |
protein transport | CCCAG | - | 1/1 |
regulation of apoptosis | CATAG | - | 1/1 |
regulation of protein kinase activity | AAAAG | - | 1/1 |
regulation of translation | CGTGCTTC | - | 1/1 |
ribonucleotide metabolism | CTTGATCC | - | 1/1 |
RNA localization | ACGCCG | - | 1/1 |
synaptogenesis | AGCGCCAC | - | 1/1 |
transcription | CCGAG | - | 1/1 |
transcription\, DNA-dependent | CCGAG | - | 1/2 |
translation | ACTTCCGG | - | 1/1 |
two-component signal transduction system (phosphorelay) | CACACGGG | - | 1/1 |
vision | AATCCCT | - | 1/1 |