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Table 5 Use of RNA-Seq evidence to improve annotation of untranslated regions to aid in promoter mining and epigenetic studies

From: FINDER: an automated software package to annotate eukaryotic genes from RNA-Seq data and associated protein sequences

  Number of FINDER1 transcripts having TSS better than BRAKER2 Number of BRAKER2 transcripts having TSS better than FINDER1
Arabidopsis thaliana 15,063 (65%) 8022 (35%)
Oryza sativa 11,089 (66%) 5762 (34%)
Zea mays (NCBI) 20,721 (76%) 6628 (24%)
Zea mays (AGPv3) 7618 (28%) 19,731 (72%)
Zea mays (AGPv4) 18,114 (69%) 8297 (31%)
Caenorhabditis elegans 8681 (33%) 17,730 (67%)
Drosophila melanogaster 10,238 (63%) 5917 (37%)
Homo sapiens 10,158 (74%) 3486 (26%)
Hordeum vulgare 10,373 (65%) 5607 (35%)
  1. Best performance is indicated by bold values