uORF annotation in Ensembl/GENCODE

Question

[i.sudbery]

Do protein coding genes in Ensembl/Gencode GTF files always only have one CDS? For example if a protein has a uORF that has been demonstrated to be translated, will it be annotated as a second CDS in the transcript, or can I always assume that the 5' most start codon in a GTF record is the start of the main CDS?

Answer 1

[JC]

As far I know, uORF should be annotated as a new CDS for the protein.