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Table 1 Reference and FR-AgENCODE detected transcripts. This table provides the total number of reference transcripts for each species, the number and percent of those that were detected by RNA-seq (TPM ≥ 0.1 in at least 2 samples), the total number of FR-AgENCODE transcripts, and the subsets of them that were mRNAs (known and novel) and lncRNAs (known and novel). Overall, the transcript repertoire is increased by about 100% in most of the species. As these results naturally depend on the input data, details about the genome assemblies and reference annotations that were used for this study are listed in Additional file 1: Table S2

From: Multi-species annotation of transcriptome and chromatin structure in domesticated animals

Species Reference transcripts FR-AgENCODE transcripts
  All Expressed mRNAs lncRNAs
   % of total   Known Novel Known Novel
Cattle 26,740 16,100 60.2 84,971 11,576 48,225 13 22,711
Goat 53,266 34,442 64.7 78,091 26,973 31,854 2247 11,617
Chicken 38,118 22,180 58.2 57,817 14,765 32,802 1314 6797
Pig 49,448 29,786 60.2 77,540 23,701 40,020 327 12,284