Plays a complex role in regulating the basal catalytic activity of the alpha subunit
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| PseudoU_synth_2 | PF00849 | 149 - 304 | 1.7e-28 | RNA pseudouridylate synthase |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AasI | GACNNNNNNGTC | 1 cut(s) | 576 |
| AatII | GACGTC | 1 cut(s) | 14 |
| Acc36I | ACCTGC | 1 cut(s) | 475 |
| AccB1I | GGYRCC | 2 cut(s) | 174, 547 |
| AccB7I | CCANNNNNTGG | 2 cut(s) | 875, 1028 |
| AccII | CGCG | 1 cut(s) | 897 |
| AccIII | TCCGGA | 2 cut(s) | 139, 1207 |
| AciI | CCGC | 3 cut(s) | 230, 401, 880 |
| AclWI | GGATC | 2 cut(s) | 46, 1082 |
| AcoI | YGGCCR | 1 cut(s) | 877 |
| AcsI | RAATTY | 3 cut(s) | 36, 426, 843 |
| AcuI | CTGAAG | 2 cut(s) | 996, 1063 |
| AcyI | GRCGYC | 2 cut(s) | 11, 175 |
| AfaI | GTAC | 4 cut(s) | 671, 814, 835, 1099 |
| AfiI | CCNNNNNNNGG | 7 cut(s) | 229, 601, 797, 798, 875, 1028, 1207 |
| AflIII | ACRYGT | 2 cut(s) | 895, 955 |
| AgeI | ACCGGT | 1 cut(s) | 222 |
| AgsI | TTSAA | 2 cut(s) | 268, 434 |
| AloI | GAACNNNNNNTCC | 2 cut(s) | 642, 674 |
| AluBI | AGCT | 7 cut(s) | 623, 756, 974, 998, 1025, 1118, 1227 |
| AluI | AGCT | 7 cut(s) | 623, 756, 974, 998, 1025, 1118, 1227 |
| Alw21I | GWGCWC | 1 cut(s) | 758 |
| Alw26I | GTCTC | 3 cut(s) | 92, 178, 589 |
| AlwI | GGATC | 2 cut(s) | 46, 1082 |
| AlwNI | CAGNNNCTG | 2 cut(s) | 875, 1028 |
| Ama87I | CYCGRG | 1 cut(s) | 741 |
| Aor13HI | TCCGGA | 2 cut(s) | 139, 1207 |
| AoxI | GGCC | 4 cut(s) | 271, 877, 916, 1146 |
| ApeKI | GCWGC | 3 cut(s) | 614, 998, 1001 |
| ApoI | RAATTY | 3 cut(s) | 36, 426, 843 |
| AsiGI | ACCGGT | 1 cut(s) | 222 |
| AspLEI | GCGC | 2 cut(s) | 177, 614 |
| AspS9I | GGNCC | 1 cut(s) | 1178 |
| AsuC2I | CCSGG | 1 cut(s) | 1182 |
| AsuHPI | GGTGA | 4 cut(s) | 445, 782, 794, 1082 |
| AvaI | CYCGRG | 1 cut(s) | 741 |
| AvaII | GGWCC | 1 cut(s) | 1178 |
| AxyI | CCTNAGG | 1 cut(s) | 699 |
| BanI | GGYRCC | 2 cut(s) | 174, 547 |
| BanII | GRGCYC | 2 cut(s) | 31, 758 |
| BbsI | GAAGAC | 2 cut(s) | 242, 809 |
| Bbv12I | GWGCWC | 1 cut(s) | 758 |
| BbvI | GCAGC | 3 cut(s) | 626, 985, 988 |
| BccI | CCATC | 5 cut(s) | 248, 320, 649, 927, 1179 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 919, 953 |
| BciVI | GTATCC | 2 cut(s) | 309, 1121 |
| BcnI | CCSGG | 1 cut(s) | 1182 |
| BcoDI | GTCTC | 3 cut(s) | 92, 178, 589 |
| BfaI | CTAG | 5 cut(s) | 24, 572, 606, 825, 1228 |
| BfmI | CTRYAG | 1 cut(s) | 527 |
| BfoI | RGCGCY | 1 cut(s) | 178 |
| BfuAI | ACCTGC | 1 cut(s) | 475 |
| BfuI | GTATCC | 2 cut(s) | 309, 1121 |
| BisI | GCNGC | 4 cut(s) | 615, 880, 999, 1002 |
| BlsI | GCNGC | 4 cut(s) | 616, 881, 1000, 1003 |
| Bme1390I | CCNGG | 1 cut(s) | 1182 |
| Bme18I | GGWCC | 1 cut(s) | 1178 |
| BmeT110I | CYCGRG | 1 cut(s) | 741 |
| BmgT120I | GGNCC | 1 cut(s) | 1178 |
| BmiI | GGNNCC | 3 cut(s) | 176, 549, 1180 |
| BmrFI | CCNGG | 1 cut(s) | 1182 |
| BmsI | GCATC | 6 cut(s) | 479, 493, 531, 709, 775, 1226 |
| BpiI | GAAGAC | 2 cut(s) | 242, 809 |
| BpmI | CTGGAG | 1 cut(s) | 1005 |
| BpuMI | CCSGG | 1 cut(s) | 1182 |
| BsaHI | GRCGYC | 2 cut(s) | 11, 175 |
| BsaI | GGTCTC | 2 cut(s) | 178, 589 |
| BsaJI | CCNNGG | 1 cut(s) | 762 |
| BsaWI | WCCGGW | 3 cut(s) | 139, 222, 1207 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 642, 672 |
| Bsc4I | CCNNNNNNNGG | 7 cut(s) | 229, 601, 797, 798, 875, 1028, 1207 |
| Bse118I | RCCGGY | 3 cut(s) | 127, 222, 340 |
| Bse1I | ACTGG | 3 cut(s) | 479, 869, 880 |
| Bse21I | CCTNAGG | 1 cut(s) | 699 |
| Bse3DI | GCAATG | 2 cut(s) | 204, 672 |
| BseAI | TCCGGA | 2 cut(s) | 139, 1207 |
| BseDI | CCNNGG | 1 cut(s) | 762 |
| BseGI | GGATG | 7 cut(s) | 424, 484, 522, 660, 919, 1190, 1204 |
| BseLI | CCNNNNNNNGG | 7 cut(s) | 229, 601, 797, 798, 875, 1028, 1207 |
| BseMI | GCAATG | 2 cut(s) | 204, 672 |
| BseMII | CTCAG | 2 cut(s) | 600, 690 |
| BseNI | ACTGG | 3 cut(s) | 479, 869, 880 |
| BseRI | GAGGAG | 2 cut(s) | 716, 719 |
| BseXI | GCAGC | 3 cut(s) | 626, 985, 988 |
| BsgI | GTGCAG | 2 cut(s) | 318, 371 |
| Bsh1236I | CGCG | 1 cut(s) | 897 |
| BshFI | GGCC | 4 cut(s) | 273, 879, 918, 1148 |
| BshNI | GGYRCC | 2 cut(s) | 174, 547 |
| BshTI | ACCGGT | 1 cut(s) | 222 |
| BsiHKAI | GWGCWC | 1 cut(s) | 758 |
| BsiHKCI | CYCGRG | 1 cut(s) | 741 |
| BsiSI | CCGG | 7 cut(s) | 128, 140, 223, 274, 341, 1182, 1208 |
| BslI | CCNNNNNNNGG | 7 cut(s) | 229, 601, 797, 798, 875, 1028, 1207 |
| BsmAI | GTCTC | 3 cut(s) | 92, 178, 589 |
| BsmBI | CGTCTC | 1 cut(s) | 92 |
| BsmI | GAATGC | 1 cut(s) | 1202 |
| BsnI | GGCC | 4 cut(s) | 273, 879, 918, 1148 |
| Bso31I | GGTCTC | 2 cut(s) | 178, 589 |
| BsoBI | CYCGRG | 1 cut(s) | 741 |
| Bsp1286I | GDGCHC | 2 cut(s) | 31, 758 |
| Bsp13I | TCCGGA | 2 cut(s) | 139, 1207 |
| Bsp1407I | TGTACA | 2 cut(s) | 812, 1097 |
| Bsp143I | GATC | 4 cut(s) | 51, 574, 964, 1087 |
| BspACI | CCGC | 3 cut(s) | 230, 401, 880 |
| BspANI | GGCC | 4 cut(s) | 273, 879, 918, 1148 |
| BspCNI | CTCAG | 2 cut(s) | 599, 691 |
| BspEI | TCCGGA | 2 cut(s) | 139, 1207 |
| BspFNI | CGCG | 1 cut(s) | 897 |
| BspHI | TCATGA | 1 cut(s) | 1138 |
| BspLI | GGNNCC | 3 cut(s) | 176, 549, 1180 |
| BspMI | ACCTGC | 1 cut(s) | 475 |
| BspPI | GGATC | 2 cut(s) | 46, 1082 |
| BspT107I | GGYRCC | 2 cut(s) | 174, 547 |
| BspTNI | GGTCTC | 2 cut(s) | 178, 589 |
| BsrDI | GCAATG | 2 cut(s) | 204, 672 |
| BsrFI | RCCGGY | 3 cut(s) | 127, 222, 340 |
| BsrGI | TGTACA | 2 cut(s) | 812, 1097 |
| BsrI | ACTGG | 3 cut(s) | 479, 869, 880 |
| BssAI | RCCGGY | 3 cut(s) | 127, 222, 340 |
| BssECI | CCNNGG | 1 cut(s) | 762 |
| BssMI | GATC | 4 cut(s) | 51, 574, 964, 1087 |
| BssNI | GRCGYC | 2 cut(s) | 11, 175 |
| Bst4CI | ACNGT | 4 cut(s) | 363, 514, 669, 1163 |
| Bst6I | CTCTTC | 3 cut(s) | 77, 90, 1137 |
| BstACI | GRCGYC | 2 cut(s) | 11, 175 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 337 |
| BstAUI | TGTACA | 2 cut(s) | 812, 1097 |
| BstC8I | GCNNGC | 2 cut(s) | 129, 916 |
| BstDEI | CTNAG | 3 cut(s) | 586, 699, 1223 |
| BstEII | GGTNACC | 1 cut(s) | 451 |
| BstF5I | GGATG | 7 cut(s) | 424, 484, 522, 660, 919, 1190, 1204 |
| BstFNI | CGCG | 1 cut(s) | 897 |
| BstH2I | RGCGCY | 1 cut(s) | 178 |
| BstHHI | GCGC | 2 cut(s) | 177, 614 |
| BstKTI | GATC | 4 cut(s) | 54, 577, 967, 1090 |
| BstMAI | GTCTC | 3 cut(s) | 92, 178, 589 |
| BstMBI | GATC | 4 cut(s) | 51, 574, 964, 1087 |
| BstMWI | GCNNNNNNNGC | 6 cut(s) | 26, 337, 400, 611, 620, 995 |
| BstNSI | RCATGY | 3 cut(s) | 914, 940, 959 |
| BstPI | GGTNACC | 1 cut(s) | 451 |
| BstSCI | CCNGG | 1 cut(s) | 1180 |
| BstSFI | CTRYAG | 1 cut(s) | 527 |
| BstUI | CGCG | 1 cut(s) | 897 |
| BstV1I | GCAGC | 3 cut(s) | 626, 985, 988 |
| BstV2I | GAAGAC | 2 cut(s) | 242, 809 |
| Bsu36I | CCTNAGG | 1 cut(s) | 699 |
| BsuI | GTATCC | 2 cut(s) | 309, 1121 |
| BsuRI | GGCC | 4 cut(s) | 273, 879, 918, 1148 |
| BtsCI | GGATG | 7 cut(s) | 424, 484, 522, 660, 919, 1190, 1204 |
| BtsIMutI | CAGTG | 5 cut(s) | 255, 486, 510, 873, 1159 |
| BveI | ACCTGC | 1 cut(s) | 475 |
| Cac8I | GCNNGC | 2 cut(s) | 129, 916 |
| CaiI | CAGNNNCTG | 2 cut(s) | 875, 1028 |
| CciI | TCATGA | 1 cut(s) | 1138 |
| CfoI | GCGC | 2 cut(s) | 177, 614 |
| Cfr10I | RCCGGY | 3 cut(s) | 127, 222, 340 |
| Cfr13I | GGNCC | 1 cut(s) | 1178 |
| CseI | GACGC | 1 cut(s) | 886 |
| Csp6I | GTAC | 4 cut(s) | 670, 813, 834, 1098 |
| CspAI | ACCGGT | 1 cut(s) | 222 |
| CviQI | GTAC | 4 cut(s) | 670, 813, 834, 1098 |
| DdeI | CTNAG | 3 cut(s) | 586, 699, 1223 |
| DinI | GGCGCC | 1 cut(s) | 176 |
| DpnI | GATC | 4 cut(s) | 53, 576, 966, 1089 |
| DpnII | GATC | 4 cut(s) | 51, 574, 964, 1087 |
| DrdI | GACNNNNNNGTC | 1 cut(s) | 576 |
| DseDI | GACNNNNNNGTC | 1 cut(s) | 576 |
| EaeI | YGGCCR | 1 cut(s) | 877 |
| Eam1104I | CTCTTC | 3 cut(s) | 77, 90, 1137 |
| EarI | CTCTTC | 3 cut(s) | 77, 90, 1137 |
| Ecl136II | GAGCTC | 1 cut(s) | 756 |
| Eco147I | AGGCCT | 1 cut(s) | 1148 |
| Eco24I | GRGCYC | 2 cut(s) | 31, 758 |
| Eco31I | GGTCTC | 2 cut(s) | 178, 589 |
| Eco47I | GGWCC | 1 cut(s) | 1178 |
| Eco53kI | GAGCTC | 1 cut(s) | 756 |
| Eco57I | CTGAAG | 2 cut(s) | 996, 1063 |
| Eco81I | CCTNAGG | 1 cut(s) | 699 |
| Eco88I | CYCGRG | 1 cut(s) | 741 |
| Eco91I | GGTNACC | 1 cut(s) | 451 |
| EcoICRI | GAGCTC | 1 cut(s) | 756 |
| EcoO65I | GGTNACC | 1 cut(s) | 451 |
| EcoRI | GAATTC | 1 cut(s) | 843 |
| EcoT38I | GRGCYC | 2 cut(s) | 31, 758 |
| EgeI | GGCGCC | 1 cut(s) | 176 |
| EheI | GGCGCC | 1 cut(s) | 176 |
| Esp3I | CGTCTC | 1 cut(s) | 92 |
| FauI | CCCGC | 1 cut(s) | 223 |
| Fnu4HI | GCNGC | 4 cut(s) | 615, 880, 999, 1002 |
| FokI | GGATG | 7 cut(s) | 431, 471, 509, 667, 906, 1191, 1197 |
| FriOI | GRGCYC | 2 cut(s) | 31, 758 |
| Fsp4HI | GCNGC | 4 cut(s) | 615, 880, 999, 1002 |
| FspBI | CTAG | 5 cut(s) | 24, 572, 606, 825, 1228 |
| GlaI | GCGC | 2 cut(s) | 176, 613 |
| GluI | GCNGC | 4 cut(s) | 615, 880, 999, 1002 |
| GsuI | CTGGAG | 1 cut(s) | 1005 |
| HaeII | RGCGCY | 1 cut(s) | 178 |
| HaeIII | GGCC | 4 cut(s) | 273, 879, 918, 1148 |
| HapII | CCGG | 7 cut(s) | 128, 140, 223, 274, 341, 1182, 1208 |
| HgaI | GACGC | 1 cut(s) | 886 |
| HhaI | GCGC | 2 cut(s) | 177, 614 |
| Hin1I | GRCGYC | 2 cut(s) | 11, 175 |
| Hin6I | GCGC | 2 cut(s) | 175, 612 |
| HinP1I | GCGC | 2 cut(s) | 175, 612 |
| HincII | GTYRAC | 1 cut(s) | 247 |
| HindII | GTYRAC | 1 cut(s) | 247 |
| HinfI | GANTC | 7 cut(s) | 277, 562, 591, 681, 773, 828, 1064 |
| HpaII | CCGG | 7 cut(s) | 128, 140, 223, 274, 341, 1182, 1208 |
| HphI | GGTGA | 4 cut(s) | 445, 782, 794, 1082 |
| Hpy166II | GTNNAC | 6 cut(s) | 247, 255, 464, 822, 866, 1098 |
| Hpy188I | TCNGA | 4 cut(s) | 51, 63, 561, 849 |
| Hpy8I | GTNNAC | 6 cut(s) | 247, 255, 464, 822, 866, 1098 |
| Hpy99I | CGWCG | 3 cut(s) | 13, 16, 367 |
| HpyAV | CCTTC | 4 cut(s) | 358, 740, 744, 971 |
| HpyCH4III | ACNGT | 4 cut(s) | 363, 514, 669, 1163 |
| HpyCH4IV | ACGT | 1 cut(s) | 11 |
| HpyCH4V | TGCA | 8 cut(s) | 34, 299, 388, 470, 484, 677, 907, 914 |
| HpyF10VI | GCNNNNNNNGC | 6 cut(s) | 26, 337, 400, 611, 620, 995 |
| HpyF3I | CTNAG | 3 cut(s) | 586, 699, 1223 |
| HpySE526I | ACGT | 1 cut(s) | 11 |
| Hsp92I | GRCGYC | 2 cut(s) | 11, 175 |
| HspAI | GCGC | 2 cut(s) | 175, 612 |
| KasI | GGCGCC | 1 cut(s) | 174 |
| Kpn2I | TCCGGA | 2 cut(s) | 139, 1207 |
| KroI | GCCGGC | 1 cut(s) | 127 |
| KroNI | GCCGGC | 1 cut(s) | 129 |
| Kzo9I | GATC | 4 cut(s) | 51, 574, 964, 1087 |
| LmnI | GCTCC | 4 cut(s) | 706, 753, 793, 1123 |
| Lsp1109I | GCAGC | 3 cut(s) | 626, 985, 988 |
| LweI | GCATC | 6 cut(s) | 479, 493, 531, 709, 775, 1226 |
| MaeI | CTAG | 5 cut(s) | 24, 572, 606, 825, 1228 |
| MaeII | ACGT | 1 cut(s) | 11 |
| MaeIII | GTNAC | 3 cut(s) | 281, 451, 871 |
| MalI | GATC | 4 cut(s) | 53, 576, 966, 1089 |
| MboI | GATC | 4 cut(s) | 51, 574, 964, 1087 |
| MboII | GAAGA | 7 cut(s) | 94, 100, 107, 247, 814, 1073, 1154 |
| MhlI | GDGCHC | 2 cut(s) | 31, 758 |
| MluCI | AATT | 4 cut(s) | 36, 426, 843, 1102 |
| MluI | ACGCGT | 1 cut(s) | 895 |
| Mly113I | GGCGCC | 1 cut(s) | 175 |
| MlyI | GAGTC | 2 cut(s) | 585, 690 |
| MreI | CGCCGGCG | 1 cut(s) | 127 |
| MroI | TCCGGA | 2 cut(s) | 139, 1207 |
| MroNI | GCCGGC | 1 cut(s) | 127 |
| MseI | TTAA | 3 cut(s) | 216, 303, 357 |
| MslI | CAYNNNNRTG | 3 cut(s) | 393, 489, 960 |
| MspA1I | CMGCKG | 1 cut(s) | 974 |
| MspI | CCGG | 7 cut(s) | 128, 140, 223, 274, 341, 1182, 1208 |
| MspR9I | CCNGG | 1 cut(s) | 1182 |
| Mva1269I | GAATGC | 1 cut(s) | 1202 |
| MvnI | CGCG | 1 cut(s) | 897 |
| MwoI | GCNNNNNNNGC | 6 cut(s) | 26, 337, 400, 611, 620, 995 |
| NaeI | GCCGGC | 1 cut(s) | 129 |
| NarI | GGCGCC | 1 cut(s) | 175 |
| NciI | CCSGG | 1 cut(s) | 1182 |
| NdeII | GATC | 4 cut(s) | 51, 574, 964, 1087 |
| NgoMIV | GCCGGC | 1 cut(s) | 127 |
| NlaIV | GGNNCC | 3 cut(s) | 176, 549, 1180 |
| NmeAIII | GCCGAG | 1 cut(s) | 787 |
| NmuCI | GTSAC | 3 cut(s) | 281, 451, 871 |
| NspI | RCATGY | 3 cut(s) | 914, 940, 959 |
| PaeR7I | CTCGAG | 1 cut(s) | 741 |
| PagI | TCATGA | 1 cut(s) | 1138 |
| PceI | AGGCCT | 1 cut(s) | 1148 |
| PciI | ACATGT | 1 cut(s) | 955 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 574 |
| PctI | GAATGC | 1 cut(s) | 1202 |
| PdiI | GCCGGC | 1 cut(s) | 129 |
| PfeI | GAWTC | 5 cut(s) | 277, 562, 773, 828, 1064 |
| PflMI | CCANNNNNTGG | 2 cut(s) | 875, 1028 |
| PinAI | ACCGGT | 1 cut(s) | 222 |
| PkrI | GCNGC | 4 cut(s) | 616, 881, 1000, 1003 |
| PleI | GAGTC | 2 cut(s) | 585, 689 |
| PluTI | GGCGCC | 1 cut(s) | 178 |
| PpsI | GAGTC | 2 cut(s) | 585, 689 |
| PscI | ACATGT | 1 cut(s) | 955 |
| Psp124BI | GAGCTC | 1 cut(s) | 758 |
| PspEI | GGTNACC | 1 cut(s) | 451 |
| PspN4I | GGNNCC | 3 cut(s) | 176, 549, 1180 |
| PspPI | GGNCC | 1 cut(s) | 1178 |
| PstNI | CAGNNNCTG | 2 cut(s) | 875, 1028 |
| PvuII | CAGCTG | 1 cut(s) | 974 |
| RsaI | GTAC | 4 cut(s) | 671, 814, 835, 1099 |
| RsaNI | GTAC | 4 cut(s) | 670, 813, 834, 1098 |
| RseI | CAYNNNNRTG | 3 cut(s) | 393, 489, 960 |
| SacI | GAGCTC | 1 cut(s) | 758 |
| SaqAI | TTAA | 3 cut(s) | 216, 303, 357 |
| SatI | GCNGC | 4 cut(s) | 615, 880, 999, 1002 |
| Sau3AI | GATC | 4 cut(s) | 51, 574, 964, 1087 |
| Sau96I | GGNCC | 1 cut(s) | 1178 |
| SchI | GAGTC | 2 cut(s) | 585, 690 |
| ScrFI | CCNGG | 1 cut(s) | 1182 |
| SduI | GDGCHC | 2 cut(s) | 31, 758 |
| SfaNI | GCATC | 6 cut(s) | 479, 493, 531, 709, 775, 1226 |
| SfcI | CTRYAG | 1 cut(s) | 527 |
| SfoI | GGCGCC | 1 cut(s) | 176 |
| Sfr274I | CTCGAG | 1 cut(s) | 741 |
| SgrAI | CRCCGGYG | 1 cut(s) | 127 |
| SinI | GGWCC | 1 cut(s) | 1178 |
| SlaI | CTCGAG | 1 cut(s) | 741 |
| SmiMI | CAYNNNNRTG | 3 cut(s) | 393, 489, 960 |
| SmlI | CTYRAG | 1 cut(s) | 741 |
| SmoI | CTYRAG | 1 cut(s) | 741 |
| Sse9I | AATT | 4 cut(s) | 36, 426, 843, 1102 |
| SseBI | AGGCCT | 1 cut(s) | 1148 |
| SsiI | CCGC | 3 cut(s) | 230, 401, 880 |
| SspDI | GGCGCC | 1 cut(s) | 174 |
| SspMI | CTAG | 5 cut(s) | 24, 572, 606, 825, 1228 |
| SstI | GAGCTC | 1 cut(s) | 758 |
| StuI | AGGCCT | 1 cut(s) | 1148 |
| StyD4I | CCNGG | 1 cut(s) | 1180 |
| TaaI | ACNGT | 4 cut(s) | 363, 514, 669, 1163 |
| TaiI | ACGT | 1 cut(s) | 14 |
| TaqI | TCGA | 2 cut(s) | 568, 742 |
| TasI | AATT | 4 cut(s) | 36, 426, 843, 1102 |
| TatI | WGTACW | 3 cut(s) | 669, 812, 1097 |
| TauI | GCSGC | 1 cut(s) | 882 |
| TfiI | GAWTC | 5 cut(s) | 277, 562, 773, 828, 1064 |
| Tru1I | TTAA | 3 cut(s) | 216, 303, 357 |
| Tru9I | TTAA | 3 cut(s) | 216, 303, 357 |
| TscAI | CASTG | 5 cut(s) | 262, 486, 517, 880, 1166 |
| TseFI | GTSAC | 3 cut(s) | 281, 451, 871 |
| TseI | GCWGC | 3 cut(s) | 614, 998, 1001 |
| Tsp45I | GTSAC | 3 cut(s) | 281, 451, 871 |
| TspDTI | ATGAA | 9 cut(s) | 95, 193, 340, 411, 554, 650, 1074, 1155, 1209 |
| TspGWI | ACGGA | 2 cut(s) | 116, 160 |
| TspRI | CASTG | 5 cut(s) | 262, 486, 517, 880, 1166 |
| Van91I | CCANNNNNTGG | 2 cut(s) | 875, 1028 |
| VpaK11BI | GGWCC | 1 cut(s) | 1178 |
| XapI | RAATTY | 3 cut(s) | 36, 426, 843 |
| XceI | RCATGY | 3 cut(s) | 914, 940, 959 |
| XcmI | CCANNNNNNNNNTGG | 1 cut(s) | 1209 |
| XhoI | CTCGAG | 1 cut(s) | 741 |
| XspI | CTAG | 5 cut(s) | 24, 572, 606, 825, 1228 |
| ZraI | GACGTC | 1 cut(s) | 12 |