Paralemmin sequence alignments.

A) Alignment of the conserved sequence regions of paralemmin orthologs and paralogs. These sequence regions are colored in Figure 1 (exons F1–F3 and 5′ parts of exon G are excluded). The point where the less conserved region is excluded from the alignment is marked by a dashed vertical line at position 158. Asterisks mark invariant residues and dots mark conservative substitutions. The paralemmin motif (conserved in all paralemmins), the MIF motif (conserved in all but PALM3) and the C-terminal CaaX motif are indicated by boxes above the alignment. The alternative splice site of PALMD genes is indicated by a black vertical line at position 288. B) The alternatively spliced exon H in PALMD genes, with the KKVI motif marked. The alignment used in the phylogenetic analyses included the PALMD splice variants with exon H, including the KKVI motif, rather than the splice variants with the CaaX motif (see Results). Species name abbreviations: human (Hsa), mouse (Mmu), chicken (Gga), Western clawed frog (Xtr), zebrafish (Dre), medaka (Ola), fugu (Tru), three-spined stickleback (Gac), green spotted pufferfish (Tni), sea lamprey (Pma) and lancelet (Bfl). Chromosome, scaffold (s-) or ultracontig (u-) locations are given in the sequence names, followed by the assigned paralemmin isoform based on our phylogenetic analysis.