Table 2 Statistics for ‘Golden Delicious’ genome protein-coding sequences annotation
From: Improved hybrid de novo genome assembly of domesticated apple (Malus x domestica)
Gene_number | Avg_mRNA_length (bp) | Total_exon_number | Avg_exon_length (bp) | Avg_cds_length (bp) | Avg_exon_number | Total_intron_length (bp) | ||
|---|---|---|---|---|---|---|---|---|
De novo | augustus | 37693 | 2233.785106 | 203848 | 166.933235 | 902.793781 | 5.408113 | 50169056 |
genscan | 33206 | 8849.329489 | 210077 | 158.970511 | 1005.723303 | 6.326477 | 260454787 | |
glimmerHMM | 48129 | 1404.407447 | 151751 | 182.492643 | 575.400299 | 3.153005 | 39899285 | |
snap | 73555 | 936.269975 | 219634 | 162.207063 | 484.347577 | 2.985983 | 33241152 | |
Homolog | B. oleracea | 7000 | 2320.829429 | 46309 | 139.074802 | 920.059286 | 6.615571 | 9805391 |
G. max | 8578 | 2427.167172 | 60008 | 137.457522 | 961.593728 | 6.995570 | 12571689 | |
O. sativa | 11000 | 1887.083182 | 61308 | 137.971668 | 768.978818 | 5.573455 | 12299148 | |
P. mume | 9000 | 2623.029667 | 67760 | 135.473332 | 1019.963667 | 7.528889 | 14427594 | |
P. trichocarpa | 30585 | 2321.131764 | 207830 | 138.869210 | 943.638646 | 6.795161 | 42130627 | |
P. persica | 12733 | 2431.885573 | 93666 | 134.420665 | 988.820074 | 7.356161 | 18374553 | |
P. communis | 34642 | 2833.118267 | 256347 | 129.467222 | 958.043242 | 7.399890 | 64956349 | |
V. vinifera | 17175 | 2460.852402 | 118296 | 138.772773 | 955.823231 | 6.887686 | 25848876 | |
Z. mays | 22341 | 2004.558569 | 130795 | 138.548645 | 811.130657 | 5.854483 | 26662373 | |
RNA-seq | GDflorwer1 | 48423 | 2234.847387 | 212811 | 300.027231 | 1318.569585 | 4.394833 | 49998557 |
GDflorwer2 | 49952 | 2231.126001 | 220057 | 304.286867 | 1340.495976 | 4.405369 | 50837822 | |
GDflorwer3 | 49848 | 2242.481785 | 223056 | 305.307031 | 1366.164440 | 4.474723 | 49515976 | |
GDleaf1 | 45034 | 2258.958920 | 203894 | 296.653634 | 1343.116223 | 4.527557 | 46765622 | |
GDleaf2 | 44669 | 2300.217086 | 204106 | 298.250576 | 1362.795943 | 4.569299 | 47700782 | |
GDleaf3 | 45220 | 2292.436975 | 206566 | 301.208723 | 1375.928372 | 4.568023 | 47304519 | |
GDstem1 | 46908 | 2299.298840 | 212019 | 308.944807 | 1396.396542 | 4.519890 | 48015182 | |
GDstem2 | 46271 | 2308.347604 | 209286 | 307.787090 | 1392.136090 | 4.523049 | 48368862 | |
GDstem3 | 46657 | 2296.511542 | 209284 | 310.624348 | 1393.332319 | 4.485586 | 48454706 | |
EVM | 53922 | 1793.161066 | 221394 | 167.775983 | 688.857906 | 4.105820 | 59546235 |