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Rice
Figure 1 | Rice

Figure 1

From: Upstream regulatory architecture of rice genes: summarizing the baseline towards genus-wide comparative analysis of regulatory networks and allele mining

Figure 1

Comparison of the core promoter architectures of rice genes with the prototype core promoters of metazoan and Arabidopsis genes. In addition to the TATA-box, the composite prototype model of metazoan core promoter shows all previously identified cis-elements (BRE= TFIIB recognition element; DPE= Downstream promoter element; Inr= Initiator sequence) occurring in various combinations with the TATA-box. In Arabidopsis genes (A, B, C), TATA-box-containing core promoters (A) represent about 30% of all the protein-coding genes encoded by the genome. Non-TATA-box-containing promoters (B, C) represent a larger proportion of Arabidopsis genes. Small groups of genes contain novel motifs (cis?) that appear to be specific to higher plants. Evidence of the importance of DPE-like and/or BRE-like sequences in the functionality of Arabidopsis core promoters have not been established so far. In rice (D, E, F), TATA-box-containing core promoters (D) represent only about 18% of all protein-coding genes in the rice genome. Y-Patch is found in as much as 50% of the total protein-coding genes either in combination with or independent of TATA-box (E, F). DPE-like and BRE-like sequences are insignificantly represented in the core promoters of rice genes.

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