Figure 2

Example CRM Model. An example CRM model (motifs are represented here by sequence logos [14]). This particular model has three necessary binding sites (a), one of which can be satisfied by matching either of two motifs (b). One binding site must be within 80 bp of another (c), and the CRM must be within 110 bp of the start of transcription (d). One binding site must appear upstream of another (e), which must appear on the antisense DNA strand (f, denoted by tcx). Additionally, a certain motif must not appear upstream of the CRM (g).