Figure 2
The combined approach identifies many putatively functional sORFs in intergenic regions. (A) Visual representation of the intergenic sORF located on the forward strand of chromosome 11 (69,794,326-69,794,388) based on data from the H2G2 genome browser. (B) DNA multiple alignments for the intergenic sORF presented in Figure 2A and based on the 8 species under investigation from the UCSC mm9 multi-species alignment. (C) Visual representation of the overlap between intergenic sORFs with ribosomal profiling evidence and the classified test subjects. True coding sORFs are depicted in green and true non-coding in red (see Additional file 1: Figure S2), black dots represent the intergenic sORFs. Classification and presentation are based on the coding probability scores from the 2 SVMs used during the analysis (See Methods). (D) Visual representation of the intergenic sORF located on the reverse strand of chromosome X (71,212,050-71,212,082) based on data from the H2G2 genome browser. The sORF is located approximately 400 bp upstream of a known protein-coding gene (Hcfc1).