Figure 4

Prediction of transcripts. (a) Transcript prediction by Cufflinks program. Graph indicates the average depth of reads from mRNA-Seq after salinity stress of the root, as in Figure 3. Exon models (Cufflinks transcripts) were predicted by the piling up of reads (graph) by the Cufflinks program. RAP representative loci (Representative), RAP predicted genes supported by ESTs (Pred. with EST) or not supported by ESTs (Pred. w/o EST), and full length-cDNA sequences (FL-cDNA) are shown. AK243146, which is similar to DREB1B in Arabidopsis thaliana, was expressed and also predicted by the Cufflinks program (black triangle). (b), (c) Putative extension of RAP2 annotated transcripts. Putative transcripts might have a much longer 5' exon (b; white triangle) or 3' UTR (c; white triangle) than the annotations in RAP-DB. Full-length-cDNAs did not cover the entire transcribed regions (white triangles).