Table 3 Per-species gene change breakdown
From: OMGene: mutual improvement of gene models through optimisation of evolutionary conservation
Species | No. changed genes | Nucleotides added/removed (means per change) | In original annotation as alternative “non-primary” gene model | |||
|---|---|---|---|---|---|---|
+ (mean) | + (mean) | + (mean) | ||||
Plants | A. thaliana | 175 | 1749 (43) | −23,747 (−118) | −22,139 (−92) | 53 (30.3%) |
B. rapa | 97 | 1787 (58) | −25,740 (−250) | − 23,953 (− 179) | 4 (4.1%) | |
C. papaya | 540 | 23,820 (65) | −72,053 (− 128) | −48,233 (−52) | 0 (0.0%) | |
C. rubella | 298 | 6568 (71) | −55,005 (− 170) | − 48,437 (−117) | 2 (0.7%) | |
T. cacao | 556 | 3700 (45) | −120,984 (−118) | −117,284 (− 124) | 95 (17.1%) | |
TOTAL | 1666 | 37,624 (61) | − 297,529 (−145) | − 259,905 (−97) | 154 (9.2%) | |
A. thaliana de novo | 598 | 13,623 (42) | −167,038 (−35) | −51,177 (−57) | N/A | |
Mammals | C. lupus | 698 | 8993 (64) | −98,467 (−117) | −89,474 (−91) | 375 (53.7%) |
H. sapiens | 397 | 4429 (59) | −41,401 (−101) | −36,972 (−76) | 218 (54.9%) | |
M. domestica | 787 | 8637 (53) | −100,256 (−101) | −91,619 (−80) | 349 (44.3%) | |
M. musculus | 270 | 9685 (120) | −19,236 (−79) | − 9551 (−29) | 81 (30.0%) | |
O. cuniculus | 534 | 12,038 (61) | −72,398 (− 112) | −60,360 (−71) | 243 (45.5%) | |
TOTAL | 2686 | 43,782 (67) | −331,758 (− 106) | −287,976 (−76) | 1266 (47.1%) | |
H. sapiens de novo | 2907 | 251,344 (79) | − 952,864 (−167) | − 701,520 (−79) | N/A | |
Fungi | E. gossypii | 46 | 0 (0) | − 4338 (−93) | −4338 (−93) | N/A |
D. hansenii | 13 | 0 (0) | − 2080 (−149) | −2080 (−149) | N/A | |
K. lactis | 11 | 0 (0) | − 1314 (− 110) | −1314 (−110) | N/A | |
S. cerevisiae | 11 | 93 (93) | − 2483 (− 191) | − 2390 (−170) | N/A | |
Y. lipolytica | 23 | 117 (29) | − 4186 (− 199) | − 4069 (− 163) | N/A | |
TOTAL | 104 | 210 (42) | −14,401 (− 135) | − 14,191 (−127) | N/A | |
S. cerevisiae de novo | 19 | 601 (120) | − 5561 (− 347) | − 4960 (−236) | N/A | |