DNA Binding Sites
DNA Binding Consensus Sequences in S. pombe
Transcription Factor Binding Sites
| Site Name | Consensus Sequence | Sequence Ontology ID |
| Sap1_recognition_motif | TARGCAGNTNYAACGMG | SO:0001864 |
| AP_1_binding_site | TGACTCA | SO:0001842 |
| calcineurin-dependent response element (CDRE motif) | GNGGCKCA | SO:0001865 |
| cyclic AMP response element (CRE) | TGACGTCA | SO:0001843 |
| CSL_response_element | GTGRGAA | SO:0001839 |
| copper-response element (CuRE) | HTHNNGCTGD | SO:0001844 |
| DNA damage response element (DRE) | CGWGGWNGMM | SO:0001845 |
| FLEX_element | GTAAACAAACAAAM | SO:0001846 |
| forkhead_motif | TTTRTTTACA | SO:0001847 |
| homol_D_box | CAGTCACA (or inverted form TGTGACTG) | SO:0001848 |
| homol_E_box | ACCCTACCCT (or inverted form AGGGTAGGGT) | SO:0001849 |
| heat shock element (HSE) | NGAAN (at least 3 copies) | SO:0001850 |
| iron_repressed_GATA_element | WGATAA | SO:0001851 |
| mating_type_M_box | ACAAT | SO:0001852 |
| sterol_regulatory_element | ATCACCCCAC (and variants) | SO:0001861 |
| STREP_motif | CCCCTC | SO:0001859 |
| TR_box | TTCTTTGTTY | SO:0001858 |
| Ace2_UAS | CCAGCC | SO:0001857 |
| CCAAT_motif | CCAAT | SO:0001856 |
| MluI cell cycle box (MCB) | ACGCGT | SO:0001855 |
Other DNA Binding Sites
| Site Name | Consensus Sequence | Sequence Ontology ID |
| GT_dinucleotide_repeat | (GT)n | SO:0001862 |
| GTT_trinucleotide_repeat | (GTT)n | SO:0001863 |
| rDNA_intergenic_spacer_element | AGGTAAGGGTAATGCAC | SO:0001860 |
SO IDs link to MISO, the Sequence Ontology Browser. Consensus sequences use the IUBMB Nomenclature for Incompletely Specified Bases in Nucleic Acid Sequences; briefly:
- R = purine (A or G)
- Y = pyrimidine (C or T)
- W = A or T
- M = A or C
- K = G or T
- H = A, C or T
- B = C, G or T