Table 5.
Comparison of GO mappings for Tortula ruralis and Phycomitrella patens
| Relationship level | Gene ontology | ISC | P.pat | ISC | T.rur | T:P | |||
| 1 | 9981 | % | 2203 | % | |||||
| 2 | biological process | 7119 | 71.33 | 1673 | 75.94 | 1.1 | |||
| 3 | physiological processes | 6901 | 69.14 | 1641 | 74.49 | 1.1 | |||
| 4 | metabolism | 5601 | 56.12 | 1345 | 61.05 | 1.1 | |||
| 5 | biosynthesis | 1672 | 16.75 | 498 | 22.61 | 1.3 | |||
| 5 | carbohydrate metabolism | 642 | 6.43 | 154 | 6.99 | 1.1 | |||
| 5 | carbon utilization | 44 | 0.44 | 19 | 0.86 | 2.0 | |||
| 5 | catabolism | 670 | 6.71 | 160 | 7.26 | 1.1 | |||
| 5 | energy pathways | 306 | 3.07 | 115 | 5.22 | 1.7 | |||
| 5 | oxidative phosphorylation | 28 | 0.28 | 13 | 0.59 | 2.1 | |||
| 5 | oxygen and ROS metabolism | 76 | 0.76 | 26 | 1.18 | 1.6 | |||
| 4 | photosynthesis | 138 | 1.38 | 73 | 3.31 | 2.4 | |||
| 5 | photosynthesis, dark reaction | 21 | 0.21 | 9 | 0.41 | 2.0 | |||
| 5 | photosynthesis, light reaction | 56 | 0.56 | 41 | 1.86 | 3.3 | |||
| 4 | response to external stimulus | 232 | 2.32 | 74 | 3.36 | 1.4 | |||
| 5 | perception of external stimulus | 37 | 0.37 | 14 | 0.64 | 1.7 | |||
| 5 | response to abiotic stimulus | 75 | 0.75 | 22 | 1.00 | 1.3 | |||
| 5 | response to biotic stimulus | 136 | 1.36 | 45 | 2.04 | 1.5 | |||
| 4 | response to stress | 231 | 2.31 | 61 | 2.77 | 1.2 | |||
| 5 | response to oxidative stress | 57 | 0.57 | 23 | 1.04 | 1.8 | |||
| 5 | response to water deprivation | 8 | 0.08 | 6 | 0.27 | 3.4 | |||
| 4 | cell growth and/or maintenance | 1536 | 15.39 | 334 | 15.16 | 1.0 | |||
| 3 | cellular process | 1845 | 18.49 | 409 | 18.57 | 1.0 | |||
| 4 | cell communication | 310 | 3.11 | 75 | 3.40 | 1.1 | |||
| 5 | signal transduction | 254 | 2.54 | 68 | 3.09 | 1.2 | |||
| 4 | cell growth and/or maintenance | 1536 | 15.39 | 334 | 15.16 | 1.0 | |||
| 5 | cell organization and biogenesis | 222 | 2.22 | 31 | 1.41 | 0.6 | |||
| 5 | cell proliferation | 219 | 2.19 | 21 | 0.95 | 0.4 | |||
| 5 | transport | 1131 | 11.33 | 286 | 12.98 | 1.1 | |||
| 3 | development | 119 | 1.19 | 25 | 1.13 | 0.9 | |||
| 2 | cellular component | 4290 | 42.98 | 982 | 44.58 | 1.0 | |||
| 3 | cell | 4137 | 41.45 | 963 | 43.71 | 1.1 | |||
| 5 | cell wall | 73 | 0.73 | 7 | 0.32 | 0.4 | |||
| 4 | intracellular | 2909 | 29.15 | 711 | 32.27 | 1.1 | |||
| 5 | cytoplasm | 2041 | 20.45 | 563 | 25.56 | 1.2 | |||
| 5 | extrachromosomal DNA | 37 | 0.37 | 15 | 0.68 | 1.8 | |||
| 5 | nucleus | 815 | 8.17 | 109 | 4.95 | 0.6 | |||
| 5 | ribonucleoprotein complex | 590 | 5.91 | 233 | 10.58 | 1.8 | |||
| 5 | thylakoid | 116 | 1.16 | 46 | 2.09 | 1.8 | |||
| 4 | membrane | 1628 | 16.31 | 368 | 16.70 | 1.0 | |||
| 5 | mitochondrial membrane | 104 | 1.04 | 43 | 1.95 | 1.9 | |||
| 5 | inner membrane | 100 | 1.00 | 40 | 1.82 | 1.8 | |||
| 5 | outer membrane | 28 | 0.28 | 11 | 0.50 | 1.8 | |||
| 2 | molecular function | 8755 | 87.72 | 1992 | 90.42 | 1.0 | |||
| 3 | binding | 3530 | 35.37 | 758 | 34.41 | 1.0 | |||
| 4 | nucleic acid binding | 1389 | 13.92 | 296 | 13.44 | 1.0 | |||
| 5 | DNA binding | 649 | 6.50 | 125 | 5.67 | 0.9 | |||
| 5 | nuclease activity | 89 | 0.89 | 15 | 0.68 | 0.8 | |||
| 5 | RNA binding | 330 | 3.31 | 58 | 2.63 | 0.8 | |||
| 5 | translation factor activity | 176 | 1.76 | 54 | 2.45 | 1.4 | |||
| 4 | nucleotide binding | 1478 | 14.81 | 335 | 15.21 | 1.0 | |||
| 4 | protein binding | 221 | 2.21 | 25 | 1.13 | 0.5 | |||
| 4 | metal ion binding | 616 | 6.17 | 161 | 7.31 | 1.2 | |||
| 3 | chaperone activity | 202 | 2.02 | 45 | 2.04 | 1.0 | |||
| 4 | heat shock protein activity | 57 | 0.57 | 17 | 0.77 | 1.4 | |||
| 3 | signal transducer activity | 233 | 2.33 | 58 | 2.63 | 1.1 | |||
| 4 | two-component sensor molecule activity | 38 | 0.38 | 18 | 0.82 | 2.2 | |||
| 4 | receptor activity | 167 | 1.67 | 41 | 1.86 | 1.1 | |||
| 5 | transmembrane receptor activity | 30 | 0.30 | 17 | 0.77 | 2.6 | |||
| 4 | structural constituent of ribosome | 553 | 5.54 | 239 | 10.85 | 2.0 | |||
| 3 | transcription regulator activity | 234 | 2.34 | 41 | 1.86 | 0.8 | |||
| 4 | transcription factor activity | 150 | 1.50 | 27 | 1.23 | 0.8 | |||
| 3 | translation regulator activity | 176 | 1.76 | 54 | 2.45 | 1.4 | |||
| 4 | translation factor, nucleic acid binding | 176 | 1.76 | 54 | 2.45 | 1.4 | |||
| 5 | translation elongation factor activity | 67 | 0.67 | 33 | 1.50 | 2.2 | |||
| 5 | translation initiation factor activity | 97 | 0.97 | 20 | 0.91 | 0.9 | |||
| 3 | transporter activity | 1115 | 11.17 | 286 | 12.98 | 1.2 | |||
| 4 | carbohydrate transporter activity | 49 | 0.49 | 11 | 0.50 | 1.0 | |||
| 4 | carrier activity | 414 | 4.15 | 109 | 4.95 | 1.2 | |||
| 4 | channel/pore class transporter activity | 68 | 0.68 | 25 | 1.13 | 1.7 | |||
| 5 | alpha-type channel activity | 59 | 0.59 | 23 | 1.04 | 1.8 | |||
| 3 | catalytic activity | 5294 | 53.04 | 1162 | 52.75 | 1.0 | |||
| 4 | isomerase activity | 183 | 1.83 | 48 | 2.18 | 1.2 | |||
| 5 | intramolecular isomerase activity | 41 | 0.41 | 10 | 0.45 | 1.1 | |||
| 4 | kinase activity | 735 | 7.36 | 137 | 6.22 | 0.8 | |||
| 4 | lyase activity | 352 | 3.53 | 93 | 4.22 | 1.2 | |||
| 4 | oxidoreductase activity | 960 | 9.62 | 264 | 11.98 | 1.2 | |||
| 4 | transferase activity | 1557 | 15.60 | 310 | 14.07 | 0.9 | |||
| 4 | hydrolase activity | 1764 | 17.67 | 374 | 16.98 | 1.0 | |||