Fig. 2

Characterization of the mouse Pax6 mRNA 3′ terminus. a Amplification strategy used in 3’ RACE approach to identify the Pax6 mRNA 3′ end. “TAA” represents the Pax6 stop codon. Nested primers F1 and F2 were used in combination with reverse primers (R1, R2) built into the poly-T primer used to generate cDNA. b 3’ RACE performed on adult retina total RNA. A predominant band was observed at 700–750 bp in contrast to minus reverse transcriptase (− RT) negative control. Weaker bands above and below the predominant 700-750 bp band were also observed. c Primary read data from RNA-seq experiment performed on polyadenylation-selected adult mouse eye mRNA. Reads were superimposed onto the 3′ end of the Pax6 region containing exons 8–13 and the 3′ end of the adjacent gene Elp4. The box encompassing Pax6 exon 13 is shown at a higher magnification in (D – top plot). The light blue shaded regions in (d) indicate the end of the Pax6 coding region. The dotted line indicates the most 3′ end point for Pax6 in both adult eye (D, top plot) and embryonic day 14 (E14) retina (D, bottom plot). e Sequence read corresponding to the most 3′ read indicated by the dotted line in (d). The putative polyadenylation signal located at position 861 of the Pax6 3’ UTR is highlighted in red