Figure 3

The combined approach identifies many putatively functional sORFs in ncRNA regions. (A) Visual representation of the lincRNA overlapping sORF located on the reverse strand of chromosome 2 (127,618,033 – 127,618,203) based on data from the H2G2 genome browser. (B) Visual representation of the overlap between ncRNA overlapping 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 ncRNA overlapping sORFs. Classification and presentation are based on the coding probability scores from the 2 SVMs used during the analysis (See Methods). (C) AA multiple alignments for the lincRNA overlapping sORF presented in Figure 3A and based on the 8 species under investigation from the UCSC mm9 multi-species alignment. Next to the AA sequences for each species, a synonymous (S) versus non-synonymous (N) annotated conservation line is added for better interpretation (see Additional file 1: Figure S1 for the complete sORF overview file).