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Supplementary Figure S1. SCPP genes identified in the coelacanth genome. The names of contigs (JH12xxxx) are indicated at the bottom. (A) Three contigs contain five acidic SCPP genes (blue), SPARCL1 (yellow), and five P/Q-rich SCPP genes (red), shown by pentagons. SPARCL1 located in JH126739 shows higher sequence similarities to SPARCL1 in other vertebrates than SPARCL2 (SPARC-like 2) found in JH128762. For SPARCL2, only exons 6–10 were detected, and no SCPP genes were identified around this gene. (B) In the coelacanth, AMEL is located upstream of exon 2 of ARHGAP6, and exon 1 of this gene is located in a different contig. In the human genome, AMELX (AMEL located on chromosome X; red pentagon) is located within intron 1 of ARHGAP6 (green bar represents exon 1 and green pentagon exons 2–13). A scale was shown at the bottom in both (A) and (B).

Supplementary Figure S2. An amino acid sequence alignment of a region containing putative integrin-binding sequences in SPP1. The RGD sequences known to bind αvβ3 and other integrins are shown in red, and the sequence shown to bind the α9β1 integrin in humans and the corresponding regions in other species are shown in blue.

Supplementary Figure S3. An amino acid sequence alignment of the region encoded by exon 3 of ODAM. Phylogenetically conserved potentially phosphorylated Ser residues are highlighted.

Supplementary Table S1. GenBank accession numbers of the nucleotide sequences used to depict Figures 3–5.

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