I M P R I N T E D R E T RO G E N E E VO L U T I O N Supporting Information The following supporting information is available for this article: Appendix S1. DNA sequences. Table S1. Primer sequences used. Table S2. SH Test results. Table S3. Description of coon evolution models used. Table S4. Genomes examined for estimation of the age of retrotransposition events. Appendix S2. Results of codeml analysis for all four gene families, using the gene-based phylogenies. Table S5. Codon evolution results using species phylogenies for gene families where the species phylogeny fit the data equally well as the gene-based phylogeny. Table S6. Alignments for each gene family. Table S7. Positively selected residues for the U2af1-rs gene family using both gene-based and species-based phylogenies. Supporting Information may be found in the online version of this article. Please note: Wiley-Blackwell is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing material) should be directed to the corresponding author for the article. EVOLUTION MAY 2011 1 4 2 7