PHD - plant homeodomain finger protein
Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.
| Species | Orthologous Gene IDs |
|---|---|
| arabidopsis_thaliana | AT1G05410 AT1G05410 |
| fragaria_vesca | FvH4_4g16310 FvH4_4g16310 FvH4_4g16310 FvH4_4g16310 FvH4_4g16310 FvH4_4g16310 FvH4_4g16310 FvH4_4g16310 |
| malus_domestica | MD13G1194400.v1.1 |
| prunus_persica | Prupe.1G015300_v2.0.a1 Prupe.1G015300_v2.0.a1 Prupe.1G015300_v2.0.a1 Prupe.1G015300_v2.0.a1 |
| pyrus_communis | pycom13g16680 |
| rosa_chinensis | RchiOBHm_Chr4g0416001 |
| rosa_laevigata | RLG00000008024 |
| rosa_multiflora | Rmu_sc0005415.1_g000007 |
| rosa_roxburghii | Rroxscaffold_5G00359850 |
| rosa_rugosa | Rorug04G0137300 Rorug04G0137400 |
| rosa_samantha | Rh4AG199800 Rh4BG197300 Rh4CG210900 Rh4DG197500 |
| rosa_wichuraiana | Rw4G016940 |
| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| Acc16I | TGCGCA | 1 cut(s) | 899 |
| Acc65I | GGTACC | 1 cut(s) | 201 |
| AccB1I | GGYRCC | 1 cut(s) | 201 |
| AciI | CCGC | 2 cut(s) | 151, 365 |
| AclWI | GGATC | 1 cut(s) | 187 |
| AcsI | RAATTY | 3 cut(s) | 244, 332, 622 |
| AcuI | CTGAAG | 1 cut(s) | 422 |
| AdeI | CACNNNGTG | 1 cut(s) | 437 |
| AfaI | GTAC | 4 cut(s) | 203, 319, 770, 1024 |
| AfiI | CCNNNNNNNGG | 3 cut(s) | 137, 235, 440 |
| AflIII | ACRYGT | 2 cut(s) | 811, 833 |
| AgsI | TTSAA | 7 cut(s) | 290, 449, 944, 983, 1060, 1354, 1361 |
| AjiI | CACGTC | 1 cut(s) | 1205 |
| AjnI | CCWGG | 2 cut(s) | 313, 1047 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 294, 326 |
| AleI | CACNNNNGTG | 1 cut(s) | 834 |
| AloI | GAACNNNNNNTCC | 2 cut(s) | 282, 314 |
| AluBI | AGCT | 6 cut(s) | 280, 400, 416, 961, 1177, 1334 |
| AluI | AGCT | 6 cut(s) | 280, 400, 416, 961, 1177, 1334 |
| Alw21I | GWGCWC | 1 cut(s) | 715 |
| Alw26I | GTCTC | 1 cut(s) | 214 |
| AlwI | GGATC | 1 cut(s) | 187 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 1081 |
| Ama87I | CYCGRG | 1 cut(s) | 852 |
| AoxI | GGCC | 3 cut(s) | 128, 237, 486 |
| ApeKI | GCWGC | 5 cut(s) | 564, 594, 597, 695, 1174 |
| ApoI | RAATTY | 3 cut(s) | 244, 332, 622 |
| Asp700I | GAANNNNTTC | 2 cut(s) | 1134, 1324 |
| Asp718I | GGTACC | 1 cut(s) | 201 |
| AspA2I | CCTAGG | 1 cut(s) | 44 |
| AspLEI | GCGC | 2 cut(s) | 783, 900 |
| AspS9I | GGNCC | 2 cut(s) | 237, 487 |
| AsuC2I | CCSGG | 3 cut(s) | 138, 241, 907 |
| AsuHPI | GGTGA | 3 cut(s) | 110, 152, 1267 |
| AsuII | TTCGAA | 1 cut(s) | 611 |
| AvaI | CYCGRG | 1 cut(s) | 852 |
| AvrII | CCTAGG | 1 cut(s) | 44 |
| BanI | GGYRCC | 1 cut(s) | 201 |
| BanII | GRGCYC | 1 cut(s) | 1056 |
| BauI | CACGAG | 1 cut(s) | 349 |
| BbsI | GAAGAC | 2 cut(s) | 620, 1071 |
| Bbv12I | GWGCWC | 1 cut(s) | 715 |
| BbvI | GCAGC | 5 cut(s) | 551, 581, 584, 682, 1186 |
| BccI | CCATC | 5 cut(s) | 26, 227, 464, 998, 1288 |
| BcgI | CGANNNNNNTGC | 6 cut(s) | 330, 364, 576, 610, 1208, 1242 |
| BciT130I | CCWGG | 2 cut(s) | 315, 1049 |
| BclI | TGATCA | 1 cut(s) | 1072 |
| BcnI | CCSGG | 3 cut(s) | 138, 241, 907 |
| BcoDI | GTCTC | 1 cut(s) | 214 |
| BfaI | CTAG | 1 cut(s) | 45 |
| BfmI | CTRYAG | 1 cut(s) | 738 |
| BfoI | RGCGCY | 1 cut(s) | 784 |
| BglII | AGATCT | 2 cut(s) | 799, 870 |
| BisI | GCNGC | 5 cut(s) | 565, 595, 598, 696, 1175 |
| BlnI | CCTAGG | 1 cut(s) | 44 |
| BlsI | GCNGC | 5 cut(s) | 566, 596, 599, 697, 1176 |
| BmcAI | AGTACT | 2 cut(s) | 770, 1024 |
| Bme1390I | CCNGG | 5 cut(s) | 138, 241, 315, 907, 1049 |
| BmeT110I | CYCGRG | 1 cut(s) | 852 |
| BmgBI | CACGTC | 1 cut(s) | 1205 |
| BmgT120I | GGNCC | 2 cut(s) | 237, 487 |
| BmiI | GGNNCC | 4 cut(s) | 203, 238, 807, 1053 |
| BmrFI | CCNGG | 5 cut(s) | 138, 241, 315, 907, 1049 |
| BmsI | GCATC | 7 cut(s) | 314, 350, 513, 710, 778, 900, 1216 |
| BpiI | GAAGAC | 2 cut(s) | 620, 1071 |
| Bpu10I | CCTNAGC | 1 cut(s) | 921 |
| Bpu14I | TTCGAA | 1 cut(s) | 611 |
| BpuEI | CTTGAG | 2 cut(s) | 1199, 1271 |
| BpuMI | CCSGG | 3 cut(s) | 138, 241, 907 |
| BsaJI | CCNNGG | 1 cut(s) | 44 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 250, 280 |
| Bsc4I | CCNNNNNNNGG | 3 cut(s) | 137, 235, 440 |
| Bse118I | RCCGGY | 1 cut(s) | 777 |
| Bse3DI | GCAATG | 2 cut(s) | 750, 915 |
| BseBI | CCWGG | 2 cut(s) | 315, 1049 |
| BseDI | CCNNGG | 1 cut(s) | 44 |
| BseLI | CCNNNNNNNGG | 3 cut(s) | 137, 235, 440 |
| BseMI | GCAATG | 2 cut(s) | 750, 915 |
| BseMII | CTCAG | 3 cut(s) | 476, 561, 756 |
| BseXI | GCAGC | 5 cut(s) | 551, 581, 584, 682, 1186 |
| BsgI | GTGCAG | 1 cut(s) | 550 |
| BshFI | GGCC | 3 cut(s) | 130, 239, 488 |
| BshNI | GGYRCC | 1 cut(s) | 201 |
| BsiHKAI | GWGCWC | 1 cut(s) | 715 |
| BsiHKCI | CYCGRG | 1 cut(s) | 852 |
| BsiSI | CCGG | 4 cut(s) | 138, 240, 778, 906 |
| BslFI | GGGAC | 2 cut(s) | 869, 985 |
| BslI | CCNNNNNNNGG | 3 cut(s) | 137, 235, 440 |
| BsmAI | GTCTC | 1 cut(s) | 214 |
| BsmFI | GGGAC | 2 cut(s) | 869, 985 |
| BsmI | GAATGC | 1 cut(s) | 600 |
| BsnI | GGCC | 3 cut(s) | 130, 239, 488 |
| BsoBI | CYCGRG | 1 cut(s) | 852 |
| Bsp119I | TTCGAA | 1 cut(s) | 611 |
| Bsp1286I | GDGCHC | 2 cut(s) | 715, 1056 |
| Bsp143I | GATC | 5 cut(s) | 179, 799, 870, 1072, 1195 |
| BspACI | CCGC | 2 cut(s) | 151, 365 |
| BspANI | GGCC | 3 cut(s) | 130, 239, 488 |
| BspCNI | CTCAG | 3 cut(s) | 475, 562, 757 |
| BspHI | TCATGA | 2 cut(s) | 19, 1015 |
| BspLI | GGNNCC | 4 cut(s) | 203, 238, 807, 1053 |
| BspPI | GGATC | 1 cut(s) | 187 |
| BspT104I | TTCGAA | 1 cut(s) | 611 |
| BspT107I | GGYRCC | 1 cut(s) | 201 |
| BsrDI | GCAATG | 2 cut(s) | 750, 915 |
| BsrFI | RCCGGY | 1 cut(s) | 777 |
| BssAI | RCCGGY | 1 cut(s) | 777 |
| BssECI | CCNNGG | 1 cut(s) | 44 |
| BssMI | GATC | 5 cut(s) | 179, 799, 870, 1072, 1195 |
| BssSI | CACGAG | 1 cut(s) | 349 |
| BssT1I | CCWWGG | 1 cut(s) | 44 |
| Bst2BI | CACGAG | 1 cut(s) | 349 |
| Bst2UI | CCWGG | 2 cut(s) | 315, 1049 |
| Bst4CI | ACNGT | 2 cut(s) | 378, 739 |
| Bst6I | CTCTTC | 1 cut(s) | 444 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 389 |
| BstBI | TTCGAA | 1 cut(s) | 611 |
| BstC8I | GCNNGC | 7 cut(s) | 274, 278, 282, 693, 733, 779, 1086 |
| BstDEI | CTNAG | 6 cut(s) | 462, 538, 570, 576, 765, 921 |
| BstH2I | RGCGCY | 1 cut(s) | 784 |
| BstHHI | GCGC | 2 cut(s) | 783, 900 |
| BstKTI | GATC | 5 cut(s) | 182, 802, 873, 1075, 1198 |
| BstMAI | GTCTC | 1 cut(s) | 214 |
| BstMBI | GATC | 5 cut(s) | 179, 799, 870, 1072, 1195 |
| BstMWI | GCNNNNNNNGC | 3 cut(s) | 36, 389, 897 |
| BstNI | CCWGG | 2 cut(s) | 315, 1049 |
| BstNSI | RCATGY | 5 cut(s) | 410, 695, 815, 837, 1088 |
| BstSCI | CCNGG | 5 cut(s) | 136, 239, 313, 905, 1047 |
| BstSFI | CTRYAG | 1 cut(s) | 738 |
| BstV1I | GCAGC | 5 cut(s) | 551, 581, 584, 682, 1186 |
| BstV2I | GAAGAC | 2 cut(s) | 620, 1071 |
| BstX2I | RGATCY | 3 cut(s) | 179, 799, 870 |
| BstYI | RGATCY | 3 cut(s) | 179, 799, 870 |
| BsuRI | GGCC | 3 cut(s) | 130, 239, 488 |
| BtgZI | GCGATG | 1 cut(s) | 45 |
| BtrI | CACGTC | 1 cut(s) | 1205 |
| BtsIMutI | CAGTG | 4 cut(s) | 374, 567, 662, 735 |
| Cac8I | GCNNGC | 7 cut(s) | 274, 278, 282, 693, 733, 779, 1086 |
| CaiI | CAGNNNCTG | 1 cut(s) | 1081 |
| CciI | TCATGA | 2 cut(s) | 19, 1015 |
| CfoI | GCGC | 2 cut(s) | 783, 900 |
| Cfr10I | RCCGGY | 1 cut(s) | 777 |
| Cfr13I | GGNCC | 2 cut(s) | 237, 487 |
| Csp6I | GTAC | 4 cut(s) | 202, 318, 769, 1023 |
| CspCI | CAANNNNNGTGG | 2 cut(s) | 689, 724 |
| CviQI | GTAC | 4 cut(s) | 202, 318, 769, 1023 |
| DdeI | CTNAG | 6 cut(s) | 462, 538, 570, 576, 765, 921 |
| DpnI | GATC | 5 cut(s) | 181, 801, 872, 1074, 1197 |
| DpnII | GATC | 5 cut(s) | 179, 799, 870, 1072, 1195 |
| DraIII | CACNNNGTG | 1 cut(s) | 437 |
| Eam1104I | CTCTTC | 1 cut(s) | 444 |
| EarI | CTCTTC | 1 cut(s) | 444 |
| Eco130I | CCWWGG | 1 cut(s) | 44 |
| Eco24I | GRGCYC | 1 cut(s) | 1056 |
| Eco57I | CTGAAG | 1 cut(s) | 422 |
| Eco88I | CYCGRG | 1 cut(s) | 852 |
| EcoRI | GAATTC | 1 cut(s) | 244 |
| EcoRII | CCWGG | 2 cut(s) | 313, 1047 |
| EcoT14I | CCWWGG | 1 cut(s) | 44 |
| EcoT38I | GRGCYC | 1 cut(s) | 1056 |
| ErhI | CCWWGG | 1 cut(s) | 44 |
| FaqI | GGGAC | 2 cut(s) | 869, 985 |
| FbaI | TGATCA | 1 cut(s) | 1072 |
| Fnu4HI | GCNGC | 5 cut(s) | 565, 595, 598, 696, 1175 |
| FriOI | GRGCYC | 1 cut(s) | 1056 |
| Fsp4HI | GCNGC | 5 cut(s) | 565, 595, 598, 696, 1175 |
| FspBI | CTAG | 1 cut(s) | 45 |
| FspI | TGCGCA | 1 cut(s) | 899 |
| GlaI | GCGC | 2 cut(s) | 782, 899 |
| GluI | GCNGC | 5 cut(s) | 565, 595, 598, 696, 1175 |
| HaeII | RGCGCY | 1 cut(s) | 784 |
| HaeIII | GGCC | 3 cut(s) | 130, 239, 488 |
| HapII | CCGG | 4 cut(s) | 138, 240, 778, 906 |
| HhaI | GCGC | 2 cut(s) | 783, 900 |
| Hin6I | GCGC | 2 cut(s) | 781, 898 |
| HinP1I | GCGC | 2 cut(s) | 781, 898 |
| HindIII | AAGCTT | 1 cut(s) | 278 |
| HinfI | GANTC | 8 cut(s) | 92, 358, 452, 458, 761, 839, 848, 1106 |
| HpaII | CCGG | 4 cut(s) | 138, 240, 778, 906 |
| HphI | GGTGA | 3 cut(s) | 110, 152, 1267 |
| Hpy188I | TCNGA | 7 cut(s) | 457, 469, 653, 719, 766, 1111, 1195 |
| Hpy99I | CGWCG | 1 cut(s) | 1209 |
| HpyAV | CCTTC | 2 cut(s) | 95, 1177 |
| HpyCH4III | ACNGT | 2 cut(s) | 378, 739 |
| HpyCH4IV | ACGT | 3 cut(s) | 937, 1068, 1204 |
| HpyF10VI | GCNNNNNNNGC | 3 cut(s) | 36, 389, 897 |
| HpyF3I | CTNAG | 6 cut(s) | 462, 538, 570, 576, 765, 921 |
| HpySE526I | ACGT | 3 cut(s) | 937, 1068, 1204 |
| HspAI | GCGC | 2 cut(s) | 781, 898 |
| KpnI | GGTACC | 1 cut(s) | 205 |
| KroI | GCCGGC | 1 cut(s) | 777 |
| KroNI | GCCGGC | 1 cut(s) | 779 |
| Ksp22I | TGATCA | 1 cut(s) | 1072 |
| Kzo9I | GATC | 5 cut(s) | 179, 799, 870, 1072, 1195 |
| LmnI | GCTCC | 3 cut(s) | 121, 1051, 1297 |
| Lsp1109I | GCAGC | 5 cut(s) | 551, 581, 584, 682, 1186 |
| LweI | GCATC | 7 cut(s) | 314, 350, 513, 710, 778, 900, 1216 |
| MaeI | CTAG | 1 cut(s) | 45 |
| MaeII | ACGT | 3 cut(s) | 937, 1068, 1204 |
| MaeIII | GTNAC | 2 cut(s) | 372, 1036 |
| MalI | GATC | 5 cut(s) | 181, 801, 872, 1074, 1197 |
| MboI | GATC | 5 cut(s) | 179, 799, 870, 1072, 1195 |
| MboII | GAAGA | 9 cut(s) | 203, 367, 461, 625, 880, 995, 1013, 1076, 1159 |
| MflI | RGATCY | 3 cut(s) | 179, 799, 870 |
| MhlI | GDGCHC | 2 cut(s) | 715, 1056 |
| MluCI | AATT | 6 cut(s) | 124, 244, 332, 444, 622, 1354 |
| MlyI | GAGTC | 3 cut(s) | 101, 461, 1115 |
| MmeI | TCCRAC | 1 cut(s) | 495 |
| MroNI | GCCGGC | 1 cut(s) | 777 |
| MroXI | GAANNNNTTC | 2 cut(s) | 1134, 1324 |
| MseI | TTAA | 3 cut(s) | 123, 875, 1266 |
| MslI | CAYNNNNRTG | 2 cut(s) | 349, 834 |
| MspA1I | CMGCKG | 2 cut(s) | 365, 416 |
| MspI | CCGG | 4 cut(s) | 138, 240, 778, 906 |
| MspR9I | CCNGG | 5 cut(s) | 138, 241, 315, 907, 1049 |
| Mva1269I | GAATGC | 1 cut(s) | 600 |
| MvaI | CCWGG | 2 cut(s) | 315, 1049 |
| MwoI | GCNNNNNNNGC | 3 cut(s) | 36, 389, 897 |
| NaeI | GCCGGC | 1 cut(s) | 779 |
| NciI | CCSGG | 3 cut(s) | 138, 241, 907 |
| NdeII | GATC | 5 cut(s) | 179, 799, 870, 1072, 1195 |
| NgoMIV | GCCGGC | 1 cut(s) | 777 |
| NlaIV | GGNNCC | 4 cut(s) | 203, 238, 807, 1053 |
| NmuCI | GTSAC | 2 cut(s) | 372, 1036 |
| NsbI | TGCGCA | 1 cut(s) | 899 |
| NspI | RCATGY | 5 cut(s) | 410, 695, 815, 837, 1088 |
| NspV | TTCGAA | 1 cut(s) | 611 |
| OliI | CACNNNNGTG | 1 cut(s) | 834 |
| PaeI | GCATGC | 2 cut(s) | 695, 1088 |
| PagI | TCATGA | 2 cut(s) | 19, 1015 |
| PciI | ACATGT | 2 cut(s) | 811, 833 |
| PctI | GAATGC | 1 cut(s) | 600 |
| PdiI | GCCGGC | 1 cut(s) | 779 |
| PdmI | GAANNNNTTC | 2 cut(s) | 1134, 1324 |
| PfeI | GAWTC | 5 cut(s) | 358, 458, 761, 839, 848 |
| PfoI | TCCNGGA | 1 cut(s) | 905 |
| PkrI | GCNGC | 5 cut(s) | 566, 596, 599, 697, 1176 |
| PleI | GAGTC | 3 cut(s) | 100, 460, 1114 |
| PpsI | GAGTC | 3 cut(s) | 100, 460, 1114 |
| PscI | ACATGT | 2 cut(s) | 811, 833 |
| Psp6I | CCWGG | 2 cut(s) | 313, 1047 |
| PspGI | CCWGG | 2 cut(s) | 313, 1047 |
| PspN4I | GGNNCC | 4 cut(s) | 203, 238, 807, 1053 |
| PspPI | GGNCC | 2 cut(s) | 237, 487 |
| PstNI | CAGNNNCTG | 1 cut(s) | 1081 |
| PsuI | RGATCY | 3 cut(s) | 179, 799, 870 |
| PvuII | CAGCTG | 1 cut(s) | 416 |
| RsaI | GTAC | 4 cut(s) | 203, 319, 770, 1024 |
| RsaNI | GTAC | 4 cut(s) | 202, 318, 769, 1023 |
| RseI | CAYNNNNRTG | 2 cut(s) | 349, 834 |
| SaqAI | TTAA | 3 cut(s) | 123, 875, 1266 |
| SatI | GCNGC | 5 cut(s) | 565, 595, 598, 696, 1175 |
| Sau3AI | GATC | 5 cut(s) | 179, 799, 870, 1072, 1195 |
| Sau96I | GGNCC | 2 cut(s) | 237, 487 |
| ScaI | AGTACT | 2 cut(s) | 770, 1024 |
| SchI | GAGTC | 3 cut(s) | 101, 461, 1115 |
| ScrFI | CCNGG | 5 cut(s) | 138, 241, 315, 907, 1049 |
| SduI | GDGCHC | 2 cut(s) | 715, 1056 |
| SfaNI | GCATC | 7 cut(s) | 314, 350, 513, 710, 778, 900, 1216 |
| SfcI | CTRYAG | 1 cut(s) | 738 |
| SfuI | TTCGAA | 1 cut(s) | 611 |
| SmiMI | CAYNNNNRTG | 2 cut(s) | 349, 834 |
| SmlI | CTYRAG | 2 cut(s) | 1178, 1286 |
| SmoI | CTYRAG | 2 cut(s) | 1178, 1286 |
| SphI | GCATGC | 2 cut(s) | 695, 1088 |
| Sse9I | AATT | 6 cut(s) | 124, 244, 332, 444, 622, 1354 |
| SsiI | CCGC | 2 cut(s) | 151, 365 |
| SspI | AATATT | 1 cut(s) | 880 |
| SspMI | CTAG | 1 cut(s) | 45 |
| StyD4I | CCNGG | 5 cut(s) | 136, 239, 313, 905, 1047 |
| StyI | CCWWGG | 1 cut(s) | 44 |
| TaaI | ACNGT | 2 cut(s) | 378, 739 |
| TaiI | ACGT | 3 cut(s) | 940, 1071, 1207 |
| TaqI | TCGA | 3 cut(s) | 586, 611, 1236 |
| TasI | AATT | 6 cut(s) | 124, 244, 332, 444, 622, 1354 |
| TatI | WGTACW | 2 cut(s) | 768, 1022 |
| TfiI | GAWTC | 5 cut(s) | 358, 458, 761, 839, 848 |
| Tru1I | TTAA | 3 cut(s) | 123, 875, 1266 |
| Tru9I | TTAA | 3 cut(s) | 123, 875, 1266 |
| TscAI | CASTG | 4 cut(s) | 381, 574, 669, 742 |
| TseFI | GTSAC | 2 cut(s) | 372, 1036 |
| TseI | GCWGC | 5 cut(s) | 564, 594, 597, 695, 1174 |
| Tsp45I | GTSAC | 2 cut(s) | 372, 1036 |
| TspDTI | ATGAA | 5 cut(s) | 8, 69, 535, 1032, 1077 |
| TspRI | CASTG | 4 cut(s) | 381, 574, 669, 742 |
| XapI | RAATTY | 3 cut(s) | 244, 332, 622 |
| XceI | RCATGY | 5 cut(s) | 410, 695, 815, 837, 1088 |
| XmaJI | CCTAGG | 1 cut(s) | 44 |
| XmnI | GAANNNNTTC | 2 cut(s) | 1134, 1324 |
| XspI | CTAG | 1 cut(s) | 45 |
| ZrmI | AGTACT | 2 cut(s) | 770, 1024 |