Delineation of complete W-linked transcript sequence. Complete transcript sequences for all W-expressed genes were determined using a combined approach of assembling transcripts from Cufflinks, the Abyss de-novo assembly and the latest chicken annotation data (Ensembl). An example of the open reading frame for five W-linked genes is shown. The hatched rectangles represent the different genomic regions to which sequences could be aligned: the W/W_random chromosome (red), Un_random chromosome (green), autosomes (grey) and gaps represent absent genomic sequence. The coloured bars below show the corresponding transcripts defined by Ensembl (aqua), Cufflinks (yellow) and ABySS (blue) analyses. The plots along the top represent the read coverage for the female gonadal sample (black) and the blastoderm sample (grey).