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Table 1 Gene structure and transcriptional activity

From: RNA-Seq Atlas of Glycine max: A guide to the soybean transcriptome

  first exon %GC internal exons %GC last exon %GC # of exons total exon length # of genes
a) All 314 ± 386 44% ± 8% 180 ± 172 42% ± 5% 246 ± 299 44% ± 8% 5.0 ± 5.1 1006 ± 987 66210
b) Expressed 351 ± 418 45% ± 8% 190 ± 178 43% ± 4% 267 ± 315 45% ± 8% 5.5 ± 5.6 1164 ± 1036 49151
c) Not Expressed 207 ± 247 41% ± 8% 141 ± 142 40% ± 6% 170 ± 218 40% ± 7% 3.4 ± 2.8 550.0 ± 638.8 17059
d) Confident 374 ± 438 45% ± 8% 197 ± 185 43% ± 4% 279 ± 328 45% ±7% 5.8 ± 5.7 1263 ± 1062 46430
e) Not Confident 172 ± 141 41% ± 8% 114 ± 77 40% ± 7% 135 ± 117 41% ± 8% 3.0 ± 2.5 403 ± 308 19780
f) Not Expressed, Not Confident 165 ± 129 40% ± 8% 110 ± 73 39% ± 7% 132 ± 108 40% ± 7% 3.0 ± 2.5 395 ± 283 12604
  1. a) All - All 66,210 predicted genes.
  2. b) Expressed - The subset of the predicted genes that were transcriptionally active according to our definition: total of two counts in one or more tissues.
  3. c) Not Expressed - The subset of the predicted gens that were not transcriptionally active according to our definition.
  4. d) Confident - The subset of genes that were identified in the final draft of the soybean genome as highly-confident.
  5. e) Not Confident - The subset of genes that were not identified in the final draft of the soybean genome as highly-confident.
  6. f) Not Expressed, Not Confident - The subset of genes that comprise the intersection of c and d: the genes are neither expressed or highly-confident.
  7. Relationship between exon length, percent GC content and transcriptional activity for three classes of exons: the first exon (first), the internal exons (internal) and last exon (last). The total number of genes in each group and the total exon length is also indicated.