From: E-CAI: a novel server to estimate an expected value of Codon Adaptation Index (eCAI)
a) Nuclear encoded genes | ||||||||||
---|---|---|---|---|---|---|---|---|---|---|
Complex | Gene name | Length | CAIhm | eCAIhm | CAIhm/eCAIhm | CAImt | eCAImt | CAImt/eCAImt | ||
p = 0.05 | p = 0.05 | p = 0.05 | p = 0.05 | |||||||
I | NDUFS1 | 2184 | 0.695 | * | 0.683 | 1.018 | 0.434 | 0.519 | 0.836 | |
NDUFS2 | 1392 | 0.765 | ** | 0.734 | 1.042 | 0.391 | 0.500 | 0.782 | ||
NDUFS3 | 795 | 0.754 | * | 0.750 | 1.005 | 0.402 | 0.488 | 0.824 | ||
NDUFS7 | 642 | 0.867 | ** | 0.780 | 1.112 | 0.442 | 0.446 | 0.991 | ||
NDUFS8 | 633 | 0.868 | ** | 0.796 | 1.090 | 0.439 | 0.465 | 0.944 | ||
NDUFV1 | 1395 | 0.825 | ** | 0.774 | 1.066 | 0.417 | 0.482 | 0.865 | ||
NDUFV2 | 750 | 0.695 | 0.703 | 0.989 | 0.449 | 0.519 | 0.865 | |||
II | SDHC | 510 | 0.699 | * | 0.679 | 1.029 | 0.377 | 0.457 | 0.825 | |
SDHD | 480 | 0.663 | * | 0.654 | 1.014 | 0.387 | 0.464 | 0.834 | ||
SDHA | 1995 | 0.768 | * | 0.750 | 1.024 | 0.423 | 0.496 | 0.853 | ||
SDHB | 843 | 0.778 | ** | 0.754 | 1.032 | 0.454 | 0.481 | 0.944 | ||
III | UQCRFS1 | 825 | 0.711 | * | 0.711 | 1.000 | 0.391 | 0.483 | 0.810 | |
CYC1 | 978 | 0.759 | * | 0.750 | 1.012 | 0.379 | 0.449 | 0.844 | ||
IV | COX10 | 1332 | 0.744 | ** | 0.713 | 1.043 | 0.454 | 0.462 | 0.983 | |
COX11 | 831 | 0.738 | * | 0.725 | 1.018 | 0.407 | 0.513 | 0.793 | ||
COX15 | 1140 | 0.707 | * | 0.688 | 1.028 | 0.411 | 0.472 | 0.871 | ||
V | ATP5B | 1590 | 0.714 | * | 0.698 | 1.023 | 0.412 | 0.507 | 0.813 | |
ATP5A1 | 1512 | 0.695 | * | 0.684 | 1.016 | 0.409 | 0.519 | 0.788 | ||
ATP5C1 | 897 | 0.726 | * | 0.705 | 1.030 | 0.463 | 0.509 | 0.910 | ||
ATP5O | 642 | 0.700 | ** | 0.681 | 1.028 | 0.429 | 0.486 | 0.883 | ||
ATP5D | 507 | 0.807 | ** | 0.748 | 1.079 | 0.410 | 0.426 | 0.962 | ||
ATP5G1 | 411 | 0.776 | ** | 0.707 | 1.098 | 0.456 | 0.482 | 0.946 | ||
ATP5G2 | 474 | 0.752 | ** | 0.686 | 1.096 | 0.472 | * | 0.451 | 1.047 | |
ATP5G3 | 429 | 0.720 | ** | 0.678 | 1.062 | 0.430 | 0.510 | 0.843 | ||
ATP6V1A | 1854 | 0.709 | * | 0.702 | 1.010 | 0.451 | 0.525 | 0.859 | ||
ATP6V1B1 | 1536 | 0.703 | 0.711 | 0.989 | 0.439 | 0.514 | 0.854 | |||
ATP6V1D | 744 | 0.676 | 0.697 | 0.970 | 0.430 | 0.522 | 0.824 | |||
ATP6V1E1 | 681 | 0.721 | * | 0.713 | 1.011 | 0.431 | 0.500 | 0.862 | ||
ATP6V1E2 | 681 | 0.777 | ** | 0.733 | 1.060 | 0.410 | 0.466 | 0.880 | ||
TCIRG1 | 2493 | 0.857 | ** | 0.781 | 1.097 | 0.421 | 0.434 | 0.970 | ||
ATP6V0D2 | 1053 | 0.732 | * | 0.722 | 1.014 | 0.456 | 0.518 | 0.880 | ||
ATP6V0C | 468 | 0.838 | ** | 0.748 | 1.120 | 0.511 | ** | 0.461 | 1.108 | |
ATP6F | 618 | 0.803 | ** | 0.741 | 1.084 | 0.510 | 0.514 | 0.992 | ||
ATP6V0D1 | 1056 | 0.831 | ** | 0.793 | 1.048 | 0.457 | 0.495 | 0.923 | ||
ATP6V0A1 | 2496 | 0.758 | * | 0.734 | 1.033 | 0.424 | 0.507 | 0.836 | ||
ATP6V0A4 | 2523 | 0.770 | ** | 0.735 | 1.048 | 0.458 | 0.494 | 0.927 | ||
ATP6V0A2 | 2571 | 0.748 | * | 0.728 | 1.027 | 0.450 | 0.491 | 0.916 | ||
b) Mitochondrial encoded genes | ||||||||||
Complex | Gene Name | Length | CAI hm | eCAI hm | CAI hm /eCAI hm | CAI mt | eCAI mt | CAI mt /eCAI mt | ||
p = 0.05 | p = 0.05 | p = 0.05 | p = 0.05 | |||||||
I | ND1 | 957 | 0.635 | 0.796 | 0.798 | 0.760 | ** | 0.456 | 1.667 | |
ND2 | 1044 | 0.616 | 0.774 | 0.796 | 0.677 | ** | 0.457 | 1.481 | ||
ND3 | 345 | 0.571 | 0.703 | 0.812 | 0.701 | ** | 0.461 | 1.521 | ||
ND4L | 297 | 0.550 | 0.679 | 0.810 | 0.738 | ** | 0.472 | 1.564 | ||
ND4 | 1377 | 0.612 | 0.654 | 0.936 | 0.722 | ** | 0.455 | 1.587 | ||
ND5 | 1812 | 0.651 | 0.750 | 0.868 | 0.723 | ** | 0.471 | 1.535 | ||
ND6 | 525 | 0.612 | 0.754 | 0.812 | 0.361 | 0.551 | 0.655 | |||
III | CYTB | 1134 | 0.655 | 0.711 | 0.921 | 0.758 | ** | 0.481 | 1.576 | |
IV | COX1 | 1542 | 0.644 | 0.750 | 0.859 | 0.715 | ** | 0.509 | 1.405 | |
COX2 | 684 | 0.641 | 0.713 | 0.899 | 0.664 | ** | 0.503 | 1.320 | ||
COX3 | 780 | 0.656 | 0.725 | 0.905 | 0.704 | ** | 0.497 | 1.416 | ||
V | ATP8 | 207 | 0.606 | 0.688 | 0.881 | 0.633 | ** | 0.452 | 1.400 | |
ATP6 | 681 | 0.629 | 0.698 | 0.901 | 0.701 | ** | 0.472 | 1.485 |