(A) Schematic representation of the FLM genomic locus as shown in Figure 1. Green dots indicate the positions of the PRO1, PRO2, and INT6 sites that were chosen for further investigation. Sequence logos display the allele frequencies at these sites among the 54 accessions of the FLM haplotype set. (B) Sequence logos and allele frequency distribution of PRO2+ and INT6+ polymorphisms among 840 Arabidopsis accessions. All polymorphic residues are marked with asterisks and the respective allele frequencies are indicated by the sequence logo. The Col-0 reference haplotype is marked in yellow, haplotypes chosen for further investigation are marked in green. (C) and (D) Alignment of the PRO2+ and INT6+ polymorphisms (C) and schematic representation of the FLMCol-0 reference construct (pFLM::gFLM) as well as the FLMCol-0 variants selected for transgenic analysis in the FLM deletion accession Nd-1. Bases that differ between FLMCol-0 and the variants are coloured. Deletions in the deletion constructs of the PRO2+ and INT6+ sites as well as the PolyA motifs are displayed with red lines (not drawn to scale). (E) and (F) Mean and SD (four replicate pools with four to eleven independent T2 transgenic lines) of qRT-PCR analyses of FLM-β (E) and FLM-δ (F). For easier comparison, the values obtained with FLMCol-0 are displayed as red and blue dotted lines. Student’s t-tests: *p≤0.05; **p≤0.01; ***p≤0.001; n.s., not significant.