Homeodomain
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| PseudoU_synth_1 | PF01416 | 330 - 396 | 6.1e-08 | tRNA pseudouridine synthase |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AarI | CACCTGC | 1 cut(s) | 1070 |
| Acc36I | ACCTGC | 1 cut(s) | 1070 |
| AccB7I | CCANNNNNTGG | 2 cut(s) | 99, 1157 |
| AccII | CGCG | 3 cut(s) | 55, 428, 885 |
| AciI | CCGC | 2 cut(s) | 428, 1074 |
| AclWI | GGATC | 2 cut(s) | 32, 1190 |
| AcsI | RAATTY | 6 cut(s) | 192, 217, 356, 592, 692, 1190 |
| AcvI | CACGTG | 1 cut(s) | 578 |
| AfaI | GTAC | 2 cut(s) | 169, 956 |
| AfiI | CCNNNNNNNGG | 6 cut(s) | 99, 294, 410, 609, 1065, 1157 |
| AflIII | ACRYGT | 1 cut(s) | 577 |
| AgsI | TTSAA | 3 cut(s) | 259, 341, 788 |
| AjiI | CACGTC | 1 cut(s) | 1130 |
| AjnI | CCWGG | 2 cut(s) | 92, 538 |
| AjuI | GAANNNNNNNTTGG | 4 cut(s) | 59, 91, 333, 365 |
| AluBI | AGCT | 3 cut(s) | 75, 874, 1148 |
| AluI | AGCT | 3 cut(s) | 75, 874, 1148 |
| Alw26I | GTCTC | 1 cut(s) | 665 |
| AlwI | GGATC | 2 cut(s) | 32, 1190 |
| AlwNI | CAGNNNCTG | 2 cut(s) | 385, 560 |
| Ama87I | CYCGRG | 1 cut(s) | 942 |
| AoxI | GGCC | 1 cut(s) | 95 |
| ApeKI | GCWGC | 4 cut(s) | 307, 416, 533, 1076 |
| ApoI | RAATTY | 6 cut(s) | 192, 217, 356, 592, 692, 1190 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 767, 799 |
| AspLEI | GCGC | 2 cut(s) | 55, 57 |
| AspS9I | GGNCC | 3 cut(s) | 313, 435, 911 |
| AsuHPI | GGTGA | 1 cut(s) | 838 |
| AvaI | CYCGRG | 1 cut(s) | 942 |
| AvaII | GGWCC | 3 cut(s) | 313, 435, 911 |
| BbrPI | CACGTG | 1 cut(s) | 578 |
| BbsI | GAAGAC | 1 cut(s) | 925 |
| BbvI | GCAGC | 4 cut(s) | 319, 403, 545, 1063 |
| BccI | CCATC | 5 cut(s) | 287, 594, 1030, 1105, 1151 |
| BcgI | CGANNNNNNTGC | 4 cut(s) | 26, 60, 995, 1029 |
| BciT130I | CCWGG | 2 cut(s) | 94, 540 |
| BcoDI | GTCTC | 1 cut(s) | 665 |
| BfaI | CTAG | 2 cut(s) | 848, 1202 |
| BfmI | CTRYAG | 1 cut(s) | 1077 |
| BfuAI | ACCTGC | 1 cut(s) | 1070 |
| BisI | GCNGC | 5 cut(s) | 308, 417, 534, 1074, 1077 |
| BlsI | GCNGC | 5 cut(s) | 309, 418, 535, 1075, 1078 |
| Bme1390I | CCNGG | 2 cut(s) | 94, 540 |
| Bme18I | GGWCC | 3 cut(s) | 313, 435, 911 |
| BmeT110I | CYCGRG | 1 cut(s) | 942 |
| BmgBI | CACGTC | 1 cut(s) | 1130 |
| BmgT120I | GGNCC | 3 cut(s) | 313, 435, 911 |
| BmiI | GGNNCC | 2 cut(s) | 286, 912 |
| BmrFI | CCNGG | 2 cut(s) | 94, 540 |
| BmsI | GCATC | 3 cut(s) | 372, 905, 1105 |
| BpiI | GAAGAC | 1 cut(s) | 925 |
| BpmI | CTGGAG | 1 cut(s) | 696 |
| BpuEI | CTTGAG | 1 cut(s) | 489 |
| BsaAI | YACGTR | 1 cut(s) | 578 |
| BsaJI | CCNNGG | 3 cut(s) | 66, 98, 803 |
| Bsc4I | CCNNNNNNNGG | 6 cut(s) | 99, 294, 410, 609, 1065, 1157 |
| Bse1I | ACTGG | 3 cut(s) | 79, 679, 1014 |
| Bse3DI | GCAATG | 3 cut(s) | 673, 745, 1097 |
| BseBI | CCWGG | 2 cut(s) | 94, 540 |
| BseDI | CCNNGG | 3 cut(s) | 66, 98, 803 |
| BseGI | GGATG | 6 cut(s) | 499, 586, 813, 896, 1041, 1120 |
| BseLI | CCNNNNNNNGG | 6 cut(s) | 99, 294, 410, 609, 1065, 1157 |
| BseMI | GCAATG | 3 cut(s) | 673, 745, 1097 |
| BseMII | CTCAG | 3 cut(s) | 558, 562, 783 |
| BseNI | ACTGG | 3 cut(s) | 79, 679, 1014 |
| BsePI | GCGCGC | 1 cut(s) | 53 |
| BseRI | GAGGAG | 1 cut(s) | 662 |
| BseXI | GCAGC | 4 cut(s) | 319, 403, 545, 1063 |
| BseYI | CCCAGC | 1 cut(s) | 1144 |
| BsgI | GTGCAG | 2 cut(s) | 552, 1104 |
| Bsh1236I | CGCG | 3 cut(s) | 55, 428, 885 |
| BshFI | GGCC | 1 cut(s) | 97 |
| BsiHKCI | CYCGRG | 1 cut(s) | 942 |
| BsiSI | CCGG | 1 cut(s) | 311 |
| BslFI | GGGAC | 1 cut(s) | 444 |
| BslI | CCNNNNNNNGG | 6 cut(s) | 99, 294, 410, 609, 1065, 1157 |
| BsmAI | GTCTC | 1 cut(s) | 665 |
| BsmFI | GGGAC | 1 cut(s) | 444 |
| BsnI | GGCC | 1 cut(s) | 97 |
| BsoBI | CYCGRG | 1 cut(s) | 942 |
| Bsp143I | GATC | 2 cut(s) | 37, 1195 |
| BspACI | CCGC | 2 cut(s) | 428, 1074 |
| BspANI | GGCC | 1 cut(s) | 97 |
| BspCNI | CTCAG | 3 cut(s) | 559, 561, 784 |
| BspFNI | CGCG | 3 cut(s) | 55, 428, 885 |
| BspLI | GGNNCC | 2 cut(s) | 286, 912 |
| BspMAI | CTGCAG | 1 cut(s) | 1081 |
| BspMI | ACCTGC | 1 cut(s) | 1070 |
| BspPI | GGATC | 2 cut(s) | 32, 1190 |
| BsrDI | GCAATG | 3 cut(s) | 673, 745, 1097 |
| BsrI | ACTGG | 3 cut(s) | 79, 679, 1014 |
| BssECI | CCNNGG | 3 cut(s) | 66, 98, 803 |
| BssHII | GCGCGC | 1 cut(s) | 53 |
| BssMI | GATC | 2 cut(s) | 37, 1195 |
| BssT1I | CCWWGG | 2 cut(s) | 66, 98 |
| Bst2UI | CCWGG | 2 cut(s) | 94, 540 |
| Bst4CI | ACNGT | 4 cut(s) | 325, 424, 556, 966 |
| BstBAI | YACGTR | 1 cut(s) | 578 |
| BstC8I | GCNNGC | 2 cut(s) | 55, 883 |
| BstDEI | CTNAG | 3 cut(s) | 548, 567, 792 |
| BstDSI | CCRYGG | 1 cut(s) | 803 |
| BstENI | CCTNNNNNAGG | 1 cut(s) | 1063 |
| BstF5I | GGATG | 6 cut(s) | 499, 586, 813, 896, 1041, 1120 |
| BstFNI | CGCG | 3 cut(s) | 55, 428, 885 |
| BstHHI | GCGC | 2 cut(s) | 55, 57 |
| BstKTI | GATC | 2 cut(s) | 40, 1198 |
| BstMAI | GTCTC | 1 cut(s) | 665 |
| BstMBI | GATC | 2 cut(s) | 37, 1195 |
| BstMWI | GCNNNNNNNGC | 4 cut(s) | 307, 425, 1082, 1145 |
| BstNI | CCWGG | 2 cut(s) | 94, 540 |
| BstNSI | RCATGY | 1 cut(s) | 1125 |
| BstSCI | CCNGG | 2 cut(s) | 92, 538 |
| BstSFI | CTRYAG | 1 cut(s) | 1077 |
| BstUI | CGCG | 3 cut(s) | 55, 428, 885 |
| BstV1I | GCAGC | 4 cut(s) | 319, 403, 545, 1063 |
| BstV2I | GAAGAC | 1 cut(s) | 925 |
| BsuRI | GGCC | 1 cut(s) | 97 |
| BtgI | CCRYGG | 1 cut(s) | 803 |
| BtrI | CACGTC | 1 cut(s) | 1130 |
| BtsCI | GGATG | 6 cut(s) | 499, 586, 813, 896, 1041, 1120 |
| BtsIMutI | CAGTG | 2 cut(s) | 321, 768 |
| BveI | ACCTGC | 1 cut(s) | 1070 |
| Cac8I | GCNNGC | 2 cut(s) | 55, 883 |
| CaiI | CAGNNNCTG | 2 cut(s) | 385, 560 |
| CfoI | GCGC | 2 cut(s) | 55, 57 |
| Cfr13I | GGNCC | 3 cut(s) | 313, 435, 911 |
| CpoI | CGGWCCG | 1 cut(s) | 435 |
| CseI | GACGC | 1 cut(s) | 1103 |
| Csp6I | GTAC | 2 cut(s) | 168, 955 |
| CspI | CGGWCCG | 1 cut(s) | 435 |
| CviAII | CATG | 7 cut(s) | 85, 278, 716, 938, 977, 997, 1122 |
| CviQI | GTAC | 2 cut(s) | 168, 955 |
| DdeI | CTNAG | 3 cut(s) | 548, 567, 792 |
| DpnI | GATC | 2 cut(s) | 39, 1197 |
| DpnII | GATC | 2 cut(s) | 37, 1195 |
| Eco130I | CCWWGG | 2 cut(s) | 66, 98 |
| Eco147I | AGGCCT | 1 cut(s) | 97 |
| Eco47I | GGWCC | 3 cut(s) | 313, 435, 911 |
| Eco72I | CACGTG | 1 cut(s) | 578 |
| Eco88I | CYCGRG | 1 cut(s) | 942 |
| EcoNI | CCTNNNNNAGG | 1 cut(s) | 1063 |
| EcoRI | GAATTC | 1 cut(s) | 1190 |
| EcoRII | CCWGG | 2 cut(s) | 92, 538 |
| EcoT14I | CCWWGG | 2 cut(s) | 66, 98 |
| ErhI | CCWWGG | 2 cut(s) | 66, 98 |
| FaeI | CATG | 7 cut(s) | 88, 281, 719, 941, 980, 1000, 1125 |
| FalI | AAGNNNNNCTT | 2 cut(s) | 59, 91 |
| FaqI | GGGAC | 1 cut(s) | 444 |
| FatI | CATG | 7 cut(s) | 84, 277, 715, 937, 976, 996, 1121 |
| FauI | CCCGC | 1 cut(s) | 421 |
| Fnu4HI | GCNGC | 5 cut(s) | 308, 417, 534, 1074, 1077 |
| FokI | GGATG | 6 cut(s) | 506, 573, 820, 883, 1048, 1127 |
| Fsp4HI | GCNGC | 5 cut(s) | 308, 417, 534, 1074, 1077 |
| FspBI | CTAG | 2 cut(s) | 848, 1202 |
| GlaI | GCGC | 2 cut(s) | 54, 56 |
| GluI | GCNGC | 5 cut(s) | 308, 417, 534, 1074, 1077 |
| GsaI | CCCAGC | 1 cut(s) | 1148 |
| GsuI | CTGGAG | 1 cut(s) | 696 |
| HaeIII | GGCC | 1 cut(s) | 97 |
| HapII | CCGG | 1 cut(s) | 311 |
| HgaI | GACGC | 1 cut(s) | 1103 |
| HhaI | GCGC | 2 cut(s) | 55, 57 |
| Hin1II | CATG | 7 cut(s) | 88, 281, 719, 941, 980, 1000, 1125 |
| Hin6I | GCGC | 2 cut(s) | 53, 55 |
| HinP1I | GCGC | 2 cut(s) | 53, 55 |
| HindIII | AAGCTT | 1 cut(s) | 73 |
| HinfI | GANTC | 2 cut(s) | 518, 1023 |
| HpaII | CCGG | 1 cut(s) | 311 |
| HphI | GGTGA | 1 cut(s) | 838 |
| Hpy166II | GTNNAC | 2 cut(s) | 829, 914 |
| Hpy188I | TCNGA | 4 cut(s) | 127, 144, 730, 973 |
| Hpy188III | TCNNGA | 5 cut(s) | 259, 506, 550, 900, 1216 |
| Hpy8I | GTNNAC | 2 cut(s) | 829, 914 |
| HpyAV | CCTTC | 4 cut(s) | 404, 845, 984, 1213 |
| HpyCH4III | ACNGT | 4 cut(s) | 325, 424, 556, 966 |
| HpyCH4IV | ACGT | 4 cut(s) | 254, 577, 777, 1129 |
| HpyF10VI | GCNNNNNNNGC | 4 cut(s) | 307, 425, 1082, 1145 |
| HpyF3I | CTNAG | 3 cut(s) | 548, 567, 792 |
| HpySE526I | ACGT | 4 cut(s) | 254, 577, 777, 1129 |
| Hsp92II | CATG | 7 cut(s) | 88, 281, 719, 941, 980, 1000, 1125 |
| HspAI | GCGC | 2 cut(s) | 53, 55 |
| Kzo9I | GATC | 2 cut(s) | 37, 1195 |
| LmnI | GCTCC | 3 cut(s) | 973, 1144, 1153 |
| Lsp1109I | GCAGC | 4 cut(s) | 319, 403, 545, 1063 |
| LweI | GCATC | 3 cut(s) | 372, 905, 1105 |
| MaeI | CTAG | 2 cut(s) | 848, 1202 |
| MaeII | ACGT | 4 cut(s) | 254, 577, 777, 1129 |
| MaeIII | GTNAC | 3 cut(s) | 448, 562, 573 |
| MalI | GATC | 2 cut(s) | 39, 1197 |
| MboI | GATC | 2 cut(s) | 37, 1195 |
| MboII | GAAGA | 3 cut(s) | 808, 925, 1199 |
| MluCI | AATT | 7 cut(s) | 192, 217, 356, 592, 692, 1062, 1190 |
| MmeI | TCCRAC | 1 cut(s) | 733 |
| MseI | TTAA | 5 cut(s) | 459, 636, 696, 702, 761 |
| MspA1I | CMGCKG | 1 cut(s) | 1076 |
| MspI | CCGG | 1 cut(s) | 311 |
| MspR9I | CCNGG | 2 cut(s) | 94, 540 |
| MvaI | CCWGG | 2 cut(s) | 94, 540 |
| MvnI | CGCG | 3 cut(s) | 55, 428, 885 |
| MwoI | GCNNNNNNNGC | 4 cut(s) | 307, 425, 1082, 1145 |
| NdeII | GATC | 2 cut(s) | 37, 1195 |
| NlaIII | CATG | 7 cut(s) | 88, 281, 719, 941, 980, 1000, 1125 |
| NlaIV | GGNNCC | 2 cut(s) | 286, 912 |
| NmuCI | GTSAC | 2 cut(s) | 448, 573 |
| NspI | RCATGY | 1 cut(s) | 1125 |
| PaeR7I | CTCGAG | 1 cut(s) | 942 |
| PaqCI | CACCTGC | 1 cut(s) | 1070 |
| PauI | GCGCGC | 1 cut(s) | 53 |
| PceI | AGGCCT | 1 cut(s) | 97 |
| PfeI | GAWTC | 2 cut(s) | 518, 1023 |
| PflMI | CCANNNNNTGG | 2 cut(s) | 99, 1157 |
| PkrI | GCNGC | 5 cut(s) | 309, 418, 535, 1075, 1078 |
| PmaCI | CACGTG | 1 cut(s) | 578 |
| PmlI | CACGTG | 1 cut(s) | 578 |
| Ppu21I | YACGTR | 1 cut(s) | 578 |
| Psp6I | CCWGG | 2 cut(s) | 92, 538 |
| PspCI | CACGTG | 1 cut(s) | 578 |
| PspFI | CCCAGC | 1 cut(s) | 1144 |
| PspGI | CCWGG | 2 cut(s) | 92, 538 |
| PspN4I | GGNNCC | 2 cut(s) | 286, 912 |
| PspPI | GGNCC | 3 cut(s) | 313, 435, 911 |
| PspXI | VCTCGAGB | 1 cut(s) | 942 |
| PstI | CTGCAG | 1 cut(s) | 1081 |
| PstNI | CAGNNNCTG | 2 cut(s) | 385, 560 |
| PteI | GCGCGC | 1 cut(s) | 53 |
| RsaI | GTAC | 2 cut(s) | 169, 956 |
| RsaNI | GTAC | 2 cut(s) | 168, 955 |
| Rsr2I | CGGWCCG | 1 cut(s) | 435 |
| RsrII | CGGWCCG | 1 cut(s) | 435 |
| SaqAI | TTAA | 5 cut(s) | 459, 636, 696, 702, 761 |
| SatI | GCNGC | 5 cut(s) | 308, 417, 534, 1074, 1077 |
| Sau3AI | GATC | 2 cut(s) | 37, 1195 |
| Sau96I | GGNCC | 3 cut(s) | 313, 435, 911 |
| ScrFI | CCNGG | 2 cut(s) | 94, 540 |
| SfaNI | GCATC | 3 cut(s) | 372, 905, 1105 |
| SfcI | CTRYAG | 1 cut(s) | 1077 |
| Sfr274I | CTCGAG | 1 cut(s) | 942 |
| SinI | GGWCC | 3 cut(s) | 313, 435, 911 |
| SlaI | CTCGAG | 1 cut(s) | 942 |
| SmlI | CTYRAG | 2 cut(s) | 504, 942 |
| SmoI | CTYRAG | 2 cut(s) | 504, 942 |
| Sse9I | AATT | 7 cut(s) | 192, 217, 356, 592, 692, 1062, 1190 |
| SseBI | AGGCCT | 1 cut(s) | 97 |
| SsiI | CCGC | 2 cut(s) | 428, 1074 |
| SspMI | CTAG | 2 cut(s) | 848, 1202 |
| StuI | AGGCCT | 1 cut(s) | 97 |
| StyD4I | CCNGG | 2 cut(s) | 92, 538 |
| StyI | CCWWGG | 2 cut(s) | 66, 98 |
| TaaI | ACNGT | 4 cut(s) | 325, 424, 556, 966 |
| TaiI | ACGT | 4 cut(s) | 257, 580, 780, 1132 |
| TaqI | TCGA | 5 cut(s) | 114, 943, 1005, 1194, 1217 |
| TaqII | GACCGA | 1 cut(s) | 452 |
| TasI | AATT | 7 cut(s) | 192, 217, 356, 592, 692, 1062, 1190 |
| TatI | WGTACW | 1 cut(s) | 954 |
| TauI | GCSGC | 1 cut(s) | 1076 |
| TfiI | GAWTC | 2 cut(s) | 518, 1023 |
| Tru1I | TTAA | 5 cut(s) | 459, 636, 696, 702, 761 |
| Tru9I | TTAA | 5 cut(s) | 459, 636, 696, 702, 761 |
| TscAI | CASTG | 2 cut(s) | 328, 775 |
| TseFI | GTSAC | 2 cut(s) | 448, 573 |
| TseI | GCWGC | 4 cut(s) | 307, 416, 533, 1076 |
| Tsp45I | GTSAC | 2 cut(s) | 448, 573 |
| TspDTI | ATGAA | 4 cut(s) | 73, 732, 993, 1200 |
| TspGWI | ACGGA | 3 cut(s) | 448, 669, 820 |
| TspRI | CASTG | 2 cut(s) | 328, 775 |
| Van91I | CCANNNNNTGG | 2 cut(s) | 99, 1157 |
| VpaK11BI | GGWCC | 3 cut(s) | 313, 435, 911 |
| XagI | CCTNNNNNAGG | 1 cut(s) | 1063 |
| XapI | RAATTY | 6 cut(s) | 192, 217, 356, 592, 692, 1190 |
| XceI | RCATGY | 1 cut(s) | 1125 |
| XhoI | CTCGAG | 1 cut(s) | 942 |
| XspI | CTAG | 2 cut(s) | 848, 1202 |