Table 4.
Phylogenetic comparison of human basal polyadenylation factors. Human basal polyadenylation factors were compared to homologous factors in other species by two criteria: percent length is the change in the number of amino acids as compared to the specific human polyadenylation factor. Positive identity is the percentage of amino acids that align to the human polyadenylation factor that are the same or similar to amino acids.
| Species | Homolog | % length | % positive Identity | |
|---|---|---|---|---|
| CPSF1 | Mouse | CPSF1 | 100 | 98 |
| Chicken | LOC770075 | 5 | 91 | |
| Fly | CPSF160 iso. A | 101 | 63 | |
| CPSF160 iso. B | 98 | 61 | ||
| Mosquito | AGAP011340-PA | 99 | 65 | |
| Purple sea urchin | LOC584773 | 85 | 70 | |
| Trypanosome (T. cruzi) | Tc00.1047053506871.140 | 100 | 41 | |
| Trypanosome (T. brucei) | Tb11.01.6170 | 100 | 41 | |
| Nematode | Cpsf-1 | 101 | 52 | |
| Rice | Os04g0252200 | 30 | 57 | |
| Thale cress | CPSF160 | 100 | 50 | |
| Wine grape | LOC100256706 | 100 | 49 | |
| Fission yeast | CTF1 | 100 | 46 | |
| Budding yeast | CTF1 | 94 | 44 | |
|
| ||||
| CPSF2 | Mouse | CPSF2 | 100 | 99 |
| Chicken | CPSF2 | 100 | 97 | |
| Fly | CPSF100 iso. A | 97 | 69 | |
| CPSF100 iso. B | 85 | 68 | ||
| Mosquito | AGAP002474-PA | 95 | 71 | |
| Purple sea urchin | LOC582050 | 99 | 75 | |
| Trypanosome (T. cruzi) | Tc00.1047053504109.110 | 103 | 42 | |
| Trypanosome (T. brucei) | Tb11.03.0910 | 105 | 42 | |
| Nematode | CPSF-2 | 108 | 60 | |
| Rice | Os09g0569400 | 94 | 56 | |
| Thale cress | CPSF100 | 95 | 57 | |
| Wine grape | LOC100267865 | 95 | 62 | |
| Fission yeast | CFT2 | 102 | 49 | |
| Budding yeast | CFT2 | 110 | 46 | |
| Archaea (H. volcanii) | EPF1 | 82 | 40 | |
|
| ||||
| CPSF3 | Mouse | CPSF3 | 100 | 99 |
| Chicken | CSPF3 | 101 | 97 | |
| Fly | CPSF73 | 100 | 79 | |
| Mosquito | AGAP001224-PA | 85 | 88 | |
| Purple sea urchin | LOC591455 | 24 | 89 | |
| Trypanosome (T. cruzi) | Tc00.1047053511003.221 | 63 | 78 | |
| Trypanosome (T. brucei) | Tb927.4.1340 | 113 | 73 | |
| Nematode | CPSF-3 | 103 | 75 | |
| Rice | Os03g0852900 | 102 | 72 | |
| Thale cress | CPSF73-I | 101 | 72 | |
| CPSF73-II | 90 | 72 | ||
| Wine grape | LOC100261042 | 101 | 72 | |
| Fission yeast | YSH1 | 113 | 67 | |
| Budding yeast | YSH1 | 114 | 60 | |
| Archaea | EPF2 | 60 | 45 | |
|
| ||||
| CPSF4 | Mouse | CPSF4 | 82 | 75 |
| Chicken | CPSF4 | 90 | 88 | |
| Fly | Clp | 110 | 64 | |
| Mosquito | AGAP005735-PA | 290 | 47 | |
| Purple sea urchin | LOC765046 | 109 | 66 | |
| Trypanosome (T. cruzi) | Tc00.1047053511555.40 | 101 | 48 | |
| Trypanosome (T. brucei) | Tb11.01.4600 | 103 | 48 | |
| Nematode | CPSF-4 | 112 | 62 | |
| Rice | Os06g0677700 | 273 | 64 | |
| Thale cress | CPSF30 | 102 | 52 | |
| Wine grape | LOC100253258 | 275 | 67 | |
| Fission yeast | YTH1 | 63 | 72 | |
| Budding yeast | Yth1p | 78 | 64 | |
|
| ||||
| FIP1L1 | Mouse | FIP1L | 98 | 92 |
| Chicken | FIP1L | 130 | 88 | |
| Fly | FIP1 | 118 | 58 | |
| Mosquito | AGAP001514-PA | 96 | 63 | |
| Purple sea urchin | LOC580164 | 142 | 60 | |
| Trypanosome (T. cruzi) | Tc00.1047053507601.80 | 48 | 60 | |
| Trypanosome (T. brucei) | Tb927.5.4320 | 47 | 65 | |
| Nematode | F32D1.9 | 86 | 79 | |
| Rice | Os01g0377500 | 73 | 58 | |
| Thale cress | FIP1[V] | 203 | 68 | |
| Wine grape | LOC100251960 | 251 | 89 | |
| Fission yeast | SPAC22G7.10 | 58 | 82 | |
| Budding yeast | Fip1 | 55 | 52 | |
|
| ||||
| CstF1 | Mouse | Cstf1 | 100 | 99 |
| Chicken | Cstf1 | 125 | 99 | |
| Fly | CstF-50 isoform A | 98 | 87 | |
| CstF-50 isoform B | 74 | 65 | ||
| Mosquito | AGAP002776-PA | 93 | 72 | |
| Purple sea urchin | LOC582854 | 95 | 74 | |
| Trypanosome (T. cruzi) | Tc00.1047053511365.10 | 121 | 42 | |
| Trypanosome (T. brucei) | Tb10.61.0570 | 120 | 43 | |
| Nematode | cpf-1 | 100 | 69 | |
| Rice | Os03g0754900 | 109 | 58 | |
| Thale cress | AT5G60940 | 100 | 57 | |
| Wine grape | LOC100267233 | 113 | 57 | |
|
| ||||
| CstF2 | Mouse | CSTF2 | 101 | 96 |
| Chicken | CSTF2 | 82 | 70 | |
| Fly | CstF-64 | 73 | 82 | |
| Mosquito | AGAP010918-PA | 68 | 81 | |
| Purple sea urchin | LOC759858 | 118 | 75 | |
| Trypanosome (T. cruzi) | Tc00.1047053506795.10 | 59 | 62 | |
| Trypanosome (T. brucei) | Tb927.7.3730 | 59 | 63 | |
| Nematode | cpf-2 | 62 | 73 | |
| Rice | OSs11g0176100 | 88 | 55 | |
| Thale cress | CSFF64 | 80 | 47 | |
| Wine grape | LOC100256296 | 94 | 49 | |
| Fission yeast | CFT1 | 63 | 73 | |
| Budding yeast | RNA15 | 51 | 75 | |
|
| ||||
| CstF2T | Mouse | CSTF2t | 103 | 93 |
|
| ||||
| CstF3 | Mouse | Cstf3 | 100 | 99 |
| Chicken | Cstf3 | 100 | 99 | |
| Fly | su(f) | 102 | 74 | |
| Mosquito | AGAP003019-PA | 710 | 75 | |
| Purple sea urchin | LOC591939 | 78 | 87 | |
| LOC582899 | 90 | 74 | ||
| Nematode | Suf-1 | 103 | 68 | |
| Rice | Os12g0571900 | 709 | 71 | |
| Thale cress | CSTF77 | 713 | 71 | |
| Wine grape | LOC100262033 | 747 | 69 | |
| Fission yeast | RNA14 | 102 | 52 | |
| Budding yeast | RNA14 | 94 | 49 | |
|
| ||||
| CPSF6 | Mouse | CPSF6 | 100 | 99 |
| Chicken | CPSF6 | 100 | 98 | |
| Fly | CG7185 | 118 | 94 | |
| Mosquito | AGAP005062-PA | 117 | 64 | |
| Purple sea urchin | LOC577326 | 163 | 62 | |
| Nematode | D1046.1 | 89 | 43 | |
| Rice | Os09g0475100 | 110 | 60 | |
| Thale cress | AT5G55670 | 106 | 50 | |
| Wine grape | LOC100268141 | 116 | 51 | |
|
| ||||
| CPSF7 | Mouse | CPSF7 | 100 | 99 |
| Chicken | CPSF7 | 98 | 92 | |
| Thale cress | AT1G13190 | 122 | 46 | |
|
| ||||
| NUDT21 | Mouse | NUDT21 | 100 | 99 |
| Chicken | AMFR | 336 | 99 | |
| Fly | CG3689 isoform B | 89 | 83 | |
| CG3689 isoform C | 104 | 85 | ||
| Mosquito | AGAP007242-PA | 102 | 86 | |
| Purple sea urchin | LOC579716 | 100 | 96 | |
| Trypanosome (T. cruzi) | Tc00.1047053509509.40 | 129 | 51 | |
| Tc00.1047053508207.220 | 129 | 51 | ||
| Trypanosome (T. brucei) | Tb927.7.1620 | 132 | 49 | |
| Nematode | F43G9.5 | 100 | 84 | |
| Rice | Os04g0683100 | 114 | 73 | |
| Thale cress | AT4G25550 | 88 | 73 | |
| CFIM-25 | 98 | 67 | ||
| Wine grape | LOC100261950 isoform 1 | 88 | 73 | |
| LOC100261950 isoform 2 | 92 | 70 | ||
|
| ||||
| Clp1 | Mouse | Clp1 | 100 | 99 |
| Chicken | Clp1 | 100 | 98 | |
| Fly | cbc | 99 | 75 | |
| Mosquito | AGAP007701-PA | 117 | 65 | |
| Purple sea urchin | LOC763581 | 85 | 70 | |
| Trypanosome (T. cruzi) | Tc00.1047053507027.59 | 97 | 47 | |
| Tc00.1047053506941.229 | 97 | 47 | ||
| Trypanosome (T. brucei) | Tb927.6.3690 | 100 | 43 | |
| Nematode | F59A2.4 | 101 | 68 | |
| Rice | Os02g0217500 | 120 | 58 | |
| Thale cress | CLPS5 | 118 | 46 | |
| CLPS3 | 123 | 60 | ||
| Wine grape | LOC100242380 | 118 | 60 | |
| Fission yeast | SPAC22H10.05c | 108 | 54 | |
| Budding yeast | Clp | 104 | 47 | |
|
| ||||
| PCF11 | Mouse | PCF11 | 100 | 97 |
| Chicken | PCF11 | 97 | 77 | |
| Fly | PCF11 | 126 | 59 | |
| Mosquito | AGAP001271-PA | 120 | 56 | |
| Purple sea urchin | LOC582414 | 170 | 64 | |
| Nematode | R144.2 | 53 | 52 | |
| Rice | Os09g0566100 | 69 | 58 | |
| Thale cress | PCFS4 | 52 | 54 | |
| Wine grape | LOC100251089 | 70 | 55 | |
| Fission yeast | SPAC4G9.04c | 41 | 65 | |
| Budding yeast | PCF11 | 40 | 56 | |
|
| ||||
| WDR33 | Mouse | WDR33 | 100 | 96 |
| Chicken | WDR33 | 98 | 88 | |
| Fly | CG1109 | 60 | 80 | |
| Mosquito | AGAP001362-PA | 271 | 74 | |
| Purple sea urchin | LOC574793 | 86 | 82 | |
| Trypanosome (T. cruzi) | Tc00.1047053511491.140 | 33 | 53 | |
| Trypanosome (T. brucei) | Tb927.6.1830 | 33 | 52 | |
| Nematode | R06A4.9 | 61 | 57 | |
| Rice | Os04g0599800 | 155 | 47 | |
| Thale cress | FY | 198 | 65 | |
| Wine grape | LOC100263567 | 237 | 70 | |
| Fission yeast | PFS2 | 38 | 64 | |
| Budding yeast | PFS2 | 35 | 58 | |
|
| ||||
| RBBP6 | Mouse | RBBP6 | 100 | 93 |
| Chicken | RBBP6 | 101 | 82 | |
| Fly | SNAMA | 69 | 59 | |
| Mosquito | AGAP011217-PA | 69 | 60 | |
| Purple sea urchin | LOC584197 | 36 | 63 | |
| Nematode | TAG-214 | 63 | 51 | |
| Rice | Os10g0431000 | 26 | 48 | |
| Thale cress | AT5G47430 | 50 | 47 | |
| Wine grape | LOC100252571 | 101 | 62 | |
| Fission yeast | SPBP8B7.15c | 27 | 51 | |
| Budding yeast | MPE1 | 25 | 49 | |
|
| ||||
| PPP1CA | Mouse | PPP1CA | 100 | 100 |
| Chicken | PPP1CC | 98 | 94 | |
| Fly | PP1alpha-96A | 99 | 92 | |
| Mosquito | AGAP011166-PA | 96 | 90 | |
| Purple sea urchin | LOC586142 | 100 | 94 | |
| Trypanosome (T. cruzi) | Tc00.1047053508815.110 | 92 | 89 | |
| Trypanosome (T. brucei) | Tb11.01.0450 | 92 | 90 | |
| Nematode | GSP-2 | 100 | 95 | |
| Rice | OS03g0268000 | 95 | 89 | |
| Thale cress | TOPP7 | 94 | 84 | |
| Wine grape | LOC100256994 | 94 | 86 | |
| Fission yeast | DIS2 | 99 | 94 | |
| Budding yeast | GLC7 | 95 | 94 | |
|
| ||||
| PPP1CB | Mouse | PPP1CB | 100 | 100 |
| Chicken | PPP1CB | 100 | 100 | |
| Fly | PP1Alpha-96A | 100 | 93 | |
| Mosquito | AGAP003114-PA | 97 | 93 | |
| Purple sea urchin | LOC752338 | 99 | 97 | |
| Trypanosome (T. cruzi) | Tc00.1047053508815.110 | 91 | 88 | |
| Trypanosome (T. brucei) | Tb11.01.0450 | 91 | 89 | |
| Nematode | GSP-1 | 100 | 97 | |
| Rice | Os06g0164100 | 98 | 92 | |
| Thale cress | TOPP4 | 98 | 90 | |
| Wine grape | LOC100258649 | 104 | 89 | |
| Fission yeast | DIS2 | 100 | 93 | |
| Budding yeast | GLC7 | 94 | 91 | |