New exons and genes in the VC2010 assembly. Segments of the VC2010 assembly are shown with N2-derived gene predictions, independent AUGUSTUS-derived gene predictions, and VC2010-specific DNA regions. For each gene, alternative transcript isoforms (if any) are shown. (A) Extra, VC2010-assembly-specific exons in the gene cpsf-1/Y76B12C.7 (alias chrIV_pilon.g9758) (Supplemental Table S21). (B) chrII_pilon.g6413, a likely new gene encoded entirely by VC2010-specific DNA; BLASTP shows this to be a paralog of T18D3.9/MPV17 in the N2 reference assembly but an ortholog of Cnig_chr_II.g6634 in the PacBio-sequenced C. nigoni. Surrounding AUGUSTUS predictions in genomic DNA shared with N2 match N2 reference gene structures closely. (C) chrX_pilon.g18545, a paralog of hasp-1/C01H6.9 encoded largely by VC2010-assembly-specific DNA. The latter two genes are listed in Supplemental Table S23.
