From: Computational discovery and annotation of conserved small open reading frames in fungal genomes
Microorganisms (yeast/fungi) | Phylum | Genome size (Mb) | Scaffolds(sc)/ Chromosomes | Intergenic region | Intron | ORF | sORFs from genome annotation | sORF from ab initio prediction | Total sORFs predicted | |||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
GetORF | sORFfinder | Combined 1st & 2nd approached | sORFs match ORF homolog | sORFs ab initio predicted | ||||||||||
Genome | Intergenic | |||||||||||||
Agaricus bisporus | Basidiomycetes | 30.78 | 29sc | 10,606 | 50,859 | 10,450 | 575 | 423,332 | 113,990 | 902,110 | 2808 | 1952 | 856 | 1431 |
Aspergillus fumigatus | Ascomycetes | 29.39 | 16 | 9916 | 18,630 | 9630 | 180 | 329,750 | 644,099 | 746,886 | 6665 | 5212 | 1453 | 1633 |
Aspergillus nidulans | Ascomycetes | 29.83 | 17 | 9410 | 25,192 | 9410 | 83 | 376,689 | 533,546 | 288,159 | 3031 | 1803 | 1228 | 1311 |
Aspergillus niger | Ascomycetes | 38.50 | 20sc | 10,828 | 25,160 | 10,609 | 90 | 454,556 | 645,989 | 431,379 | 2950 | 1690 | 1260 | 1350 |
Aspergillus oryzae | Ascomycetes | 37.91 | 27sc | 12,937 | 29,686 | 12,818 | 172 | 508,537 | 639,035 | 361,674 | 3336 | 2042 | 1294 | 1466 |
Candida dubliniensis | Ascomycetes | 14.62 | 8 | 5499 | 169 | 5213 | 45 | 180,147 | 249,542 | 181,108 | 4591 | 2046 | 2545 | 2590 |
Candida glabrata | Ascomycetes | 12.34 | 14 | 6580 | 33,084 | 6575 | 159 | 153,883 | 203,269 | 290,815 | 2593 | 1271 | 1322 | 1481 |
Cryptococcus gattii | Basidiomycetes | 18.37 | 14 | 6617 | 34,336 | 6475 | 94 | 250,564 | 331,357 | 263,216 | 2447 | 1864 | 583 | 677 |
Cryptococcus neoformans | Basidiomycetes | 2.50 | 14 | 6658 | 479 | 6290 | 110 | 254,930 | 329,135 | 247,268 | 2266 | 1673 | 593 | 703 |
Debaryomyces hansenii | Ascomycetes | 2.25 | 8 | 2029 | 32 | 1996 | 300 | 153,782 | 190,959 | 165,774 | 4179 | 2540 | 1639 | 1939 |
Encephalitozoon cuniculi | Microsporidia | 2.22 | 11 | 1892 | 14 | 1833 | 13 | 28,102 | 33,715 | 53,062 | 554 | 396 | 158 | 171 |
Encephalitozoon intestinalis | Microsporidia | 2.19 | 11 | 4853 | 239 | 4434 | 18 | 26,156 | 28,950 | 54,302 | 543 | 412 | 131 | 149 |
Eremothecium cymbalariae | Microsporidia | 9.67 | 8 | 5356 | 276 | 4776 | 61 | 119,153 | 153,876 | 171,154 | 3384 | 1865 | 1519 | 1580 |
Eremothecium gossypii | Microsporidia | 9.12 | 8 | 11,624 | 25,808 | 11,628 | 80 | 94,967 | 117,788 | 121,934 | 3529 | 2265 | 1264 | 1344 |
Gibberella zeae | Ascomycetes | 38.05 | 11 | 5649 | 1040 | 5378 | 104 | 488,905 | 698,951 | 151,211 | 4487 | 2265 | 1832 | 1936 |
Kazachstania africana | Ascomycetes | 11.13 | 12 | 5649 | 1040 | 5378 | 88 | 144,748 | 186,855 | 141,681 | 1894 | 1247 | 647 | 735 |
Kluyveromyces lactis | Ascomycetes | 10.73 | 7 | 5412 | 182 | 5085 | 73 | 139,746 | 182,755 | 81,044 | 3006 | 1636 | 1370 | 1443 |
Lachancea thermotolerans | Ascomycetes | 10.39 | 8 | 5498 | 284 | 5091 | 53 | 114,598 | 145,278 | 155,291 | 3134 | 1628 | 1506 | 1559 |
Magnaporthe grisea | Ascomycetes | 40.30 | 8 | 14,210 | 25,265 | 14,014 | 1105 | 506,420 | 699,033 | 217,609 | 4466 | 2735 | 1731 | 2836 |
Myceliophthora thermophila | Ascomycetes | 38.74 | 7 | 9294 | 15,500 | 9099 | 419 | 343,719 | 540,155 | 140,855 | 4738 | 2547 | 2191 | 2610 |
Naumovozyma castellii | Ascomycetes | 11.22 | 10 | 5870 | 203 | 5592 | 102 | 147,551 | 187,871 | 187,462 | 5691 | 3430 | 2261 | 2363 |
Naumovozyma dairenensis | Ascomycetes | 13.53 | 12 | 6057 | 177 | 5772 | 99 | 185,531 | 251,917 | 231,996 | 2841 | 1323 | 1518 | 1617 |
Pichia pastoris | Ascomycetes | 9.60 | 4 | 5040 | 578 | 5040 | 89 | 112,299 | 138,917 | 61,604 | 4161 | 2872 | 1289 | 1378 |
Pichia stipitis | Ascomycetes | 15.44 | 8 | 5816 | 2567 | 5816 | 61 | 186,356 | 259,185 | 79,673 | 2146 | 1008 | 1138 | 1199 |
Saccharomyces cerevisiae | Ascomycetes | 12.16 | 17 | 6349 | 366 | 5906 | 224 | 153,187 | 200,252 | 398,979 | 3478 | 2196 | 1282 | 1506 |
Schizosaccharomyces pombe | Ascomycetes | 12.59 | 4 | 6991 | 3793 | 5133 | 124 | 165,857 | 165,864 | 33,542 | 6027 | 3304 | 2723 | 2847 |
Tetrapisispora phaffii | Ascomycetes | 12.12 | 16 | 5460 | 141 | 5250 | 89 | 153,895 | 206,397 | 825,322 | 2959 | 1410 | 1549 | 1638 |
Thielavia terrestris | Ascomycetes | 36.91 | 6 | 9958 | 17,290 | 9802 | 72 | 296,185 | 443,166 | 163,032 | 3291 | 1966 | 1325 | 1397 |
Torulaspora delbrueckii | Ascomycetes | 9.22 | 8 | 5176 | 203 | 4972 | 402 | 113,250 | 138,118 | 509,930 | 4521 | 3074 | 1447 | 1849 |
Yarrowia lipolytica | Ascomycetes | 20.55 | 7 | 7357 | 1120 | 6472 | 106 | 242,726 | 369,856 | 127,236 | 1594 | 456 | 1138 | 1244 |
Zygosaccharomyces rouxii | Ascomycetes | 9.76 | 7 | 5332 | 166 | 4991 | 65 | 123,372 | 154,232 | 353,232 | 4429 | 2634 | 1795 | 1860 |
TOTAL | Â | Â | Â | Â | Â | 210,928 | 5255 | 6,972,893 | 9,184,052 | 902,110 | 105,739 | Â | 42,587 | 47,842 |