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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AciI | CCGC | 5 cut(s) | 225, 368, 618, 792, 795 |
| AclWI | GGATC | 1 cut(s) | 507 |
| AcsI | RAATTY | 2 cut(s) | 201, 327 |
| AcuI | CTGAAG | 1 cut(s) | 59 |
| AfaI | GTAC | 1 cut(s) | 681 |
| AgsI | TTSAA | 4 cut(s) | 64, 302, 521, 539 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 78, 110 |
| AluBI | AGCT | 2 cut(s) | 31, 320 |
| AluI | AGCT | 2 cut(s) | 31, 320 |
| Alw26I | GTCTC | 1 cut(s) | 773 |
| AlwI | GGATC | 1 cut(s) | 507 |
| Ama87I | CYCGRG | 2 cut(s) | 147, 347 |
| AoxI | GGCC | 1 cut(s) | 637 |
| ApeKI | GCWGC | 1 cut(s) | 320 |
| ApoI | RAATTY | 2 cut(s) | 201, 327 |
| AspLEI | GCGC | 1 cut(s) | 245 |
| AspS9I | GGNCC | 1 cut(s) | 142 |
| AsuHPI | GGTGA | 5 cut(s) | 285, 327, 502, 727, 796 |
| AvaI | CYCGRG | 2 cut(s) | 147, 347 |
| AvaII | GGWCC | 1 cut(s) | 142 |
| BaeI | ACNNNNGTAYC | 2 cut(s) | 477, 510 |
| BbvI | GCAGC | 1 cut(s) | 307 |
| BccI | CCATC | 1 cut(s) | 109 |
| BceAI | ACGGC | 2 cut(s) | 252, 805 |
| BcoDI | GTCTC | 1 cut(s) | 773 |
| BisI | GCNGC | 2 cut(s) | 321, 793 |
| BlsI | GCNGC | 2 cut(s) | 322, 794 |
| Bme18I | GGWCC | 1 cut(s) | 142 |
| BmeT110I | CYCGRG | 2 cut(s) | 147, 347 |
| BmgT120I | GGNCC | 1 cut(s) | 142 |
| BmiI | GGNNCC | 1 cut(s) | 144 |
| BmsI | GCATC | 1 cut(s) | 364 |
| BoxI | GACNNNNGTC | 1 cut(s) | 289 |
| BpmI | CTGGAG | 1 cut(s) | 53 |
| BpuEI | CTTGAG | 1 cut(s) | 177 |
| BsaJI | CCNNGG | 4 cut(s) | 146, 234, 280, 348 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 432, 462 |
| BseDI | CCNNGG | 4 cut(s) | 146, 234, 280, 348 |
| BseGI | GGATG | 2 cut(s) | 127, 257 |
| BseRI | GAGGAG | 1 cut(s) | 813 |
| BseXI | GCAGC | 1 cut(s) | 307 |
| BsgI | GTGCAG | 1 cut(s) | 306 |
| BshFI | GGCC | 1 cut(s) | 639 |
| BsiHKCI | CYCGRG | 2 cut(s) | 147, 347 |
| BsiSI | CCGG | 2 cut(s) | 198, 428 |
| BslFI | GGGAC | 4 cut(s) | 128, 164, 634, 722 |
| BsmAI | GTCTC | 1 cut(s) | 773 |
| BsmBI | CGTCTC | 1 cut(s) | 773 |
| BsmFI | GGGAC | 4 cut(s) | 128, 164, 634, 722 |
| BsmI | GAATGC | 1 cut(s) | 308 |
| BsnI | GGCC | 1 cut(s) | 639 |
| BsoBI | CYCGRG | 2 cut(s) | 147, 347 |
| Bsp143I | GATC | 1 cut(s) | 499 |
| BspACI | CCGC | 5 cut(s) | 225, 368, 618, 792, 795 |
| BspANI | GGCC | 1 cut(s) | 639 |
| BspLI | GGNNCC | 1 cut(s) | 144 |
| BspPI | GGATC | 1 cut(s) | 507 |
| BssECI | CCNNGG | 4 cut(s) | 146, 234, 280, 348 |
| BssMI | GATC | 1 cut(s) | 499 |
| Bst4CI | ACNGT | 2 cut(s) | 705, 784 |
| Bst6I | CTCTTC | 3 cut(s) | 42, 105, 659 |
| BstC8I | GCNNGC | 5 cut(s) | 170, 241, 379, 479, 483 |
| BstDSI | CCRYGG | 1 cut(s) | 234 |
| BstEII | GGTNACC | 1 cut(s) | 291 |
| BstF5I | GGATG | 2 cut(s) | 127, 257 |
| BstHHI | GCGC | 1 cut(s) | 245 |
| BstKTI | GATC | 1 cut(s) | 502 |
| BstMAI | GTCTC | 1 cut(s) | 773 |
| BstMBI | GATC | 1 cut(s) | 499 |
| BstMWI | GCNNNNNNNGC | 2 cut(s) | 317, 374 |
| BstPAI | GACNNNNGTC | 1 cut(s) | 289 |
| BstPI | GGTNACC | 1 cut(s) | 291 |
| BstV1I | GCAGC | 1 cut(s) | 307 |
| BsuRI | GGCC | 1 cut(s) | 639 |
| BtgI | CCRYGG | 1 cut(s) | 234 |
| BtsCI | GGATG | 2 cut(s) | 127, 257 |
| Cac8I | GCNNGC | 5 cut(s) | 170, 241, 379, 479, 483 |
| CfoI | GCGC | 1 cut(s) | 245 |
| Cfr13I | GGNCC | 1 cut(s) | 142 |
| Csp6I | GTAC | 1 cut(s) | 680 |
| CviAII | CATG | 1 cut(s) | 813 |
| CviJI | RGCY | 9 cut(s) | 31, 157, 197, 320, 431, 485, 581, 595, 639 |
| CviKI_1 | RGCY | 9 cut(s) | 31, 157, 197, 320, 431, 485, 581, 595, 639 |
| CviQI | GTAC | 1 cut(s) | 680 |
| DpnI | GATC | 1 cut(s) | 501 |
| DpnII | GATC | 1 cut(s) | 499 |
| Eam1104I | CTCTTC | 3 cut(s) | 42, 105, 659 |
| EarI | CTCTTC | 3 cut(s) | 42, 105, 659 |
| EciI | GGCGGA | 2 cut(s) | 383, 810 |
| Eco47I | GGWCC | 1 cut(s) | 142 |
| Eco57I | CTGAAG | 1 cut(s) | 59 |
| Eco88I | CYCGRG | 2 cut(s) | 147, 347 |
| Eco91I | GGTNACC | 1 cut(s) | 291 |
| EcoO109I | RGGNCCY | 1 cut(s) | 142 |
| EcoO65I | GGTNACC | 1 cut(s) | 291 |
| EcoRI | GAATTC | 1 cut(s) | 201 |
| EcoT22I | ATGCAT | 1 cut(s) | 409 |
| Esp3I | CGTCTC | 1 cut(s) | 773 |
| FaeI | CATG | 1 cut(s) | 816 |
| FaiI | YATR | 8 cut(s) | 247, 475, 507, 558, 611, 651, 696, 814 |
| FaqI | GGGAC | 4 cut(s) | 128, 164, 634, 722 |
| FatI | CATG | 1 cut(s) | 812 |
| FauI | CCCGC | 1 cut(s) | 611 |
| Fnu4HI | GCNGC | 2 cut(s) | 321, 793 |
| FokI | GGATG | 2 cut(s) | 134, 244 |
| Fsp4HI | GCNGC | 2 cut(s) | 321, 793 |
| GlaI | GCGC | 1 cut(s) | 244 |
| GluI | GCNGC | 2 cut(s) | 321, 793 |
| GsuI | CTGGAG | 1 cut(s) | 53 |
| HaeIII | GGCC | 1 cut(s) | 639 |
| HapII | CCGG | 2 cut(s) | 198, 428 |
| HhaI | GCGC | 1 cut(s) | 245 |
| Hin1II | CATG | 1 cut(s) | 816 |
| Hin6I | GCGC | 1 cut(s) | 243 |
| HinP1I | GCGC | 1 cut(s) | 243 |
| HinfI | GANTC | 3 cut(s) | 269, 622, 629 |
| HpaII | CCGG | 2 cut(s) | 198, 428 |
| HphI | GGTGA | 5 cut(s) | 285, 327, 502, 727, 796 |
| Hpy166II | GTNNAC | 1 cut(s) | 787 |
| Hpy188I | TCNGA | 3 cut(s) | 207, 262, 499 |
| Hpy188III | TCNNGA | 4 cut(s) | 77, 149, 347, 626 |
| Hpy8I | GTNNAC | 1 cut(s) | 787 |
| Hpy99I | CGWCG | 1 cut(s) | 779 |
| HpyCH4III | ACNGT | 2 cut(s) | 705, 784 |
| HpyCH4V | TGCA | 4 cut(s) | 323, 381, 407, 477 |
| HpyF10VI | GCNNNNNNNGC | 2 cut(s) | 317, 374 |
| Hsp92II | CATG | 1 cut(s) | 816 |
| HspAI | GCGC | 1 cut(s) | 243 |
| Kzo9I | GATC | 1 cut(s) | 499 |
| LpnPI | CCDG | 4 cut(s) | 17, 62, 211, 441 |
| Lsp1109I | GCAGC | 1 cut(s) | 307 |
| LweI | GCATC | 1 cut(s) | 364 |
| MaeIII | GTNAC | 2 cut(s) | 291, 434 |
| MalI | GATC | 1 cut(s) | 501 |
| MboI | GATC | 1 cut(s) | 499 |
| MboII | GAAGA | 8 cut(s) | 16, 21, 56, 59, 122, 383, 481, 676 |
| MfeI | CAATTG | 1 cut(s) | 547 |
| MluCI | AATT | 8 cut(s) | 16, 93, 201, 327, 356, 522, 547, 597 |
| MlyI | GAGTC | 2 cut(s) | 263, 616 |
| Mph1103I | ATGCAT | 1 cut(s) | 409 |
| MseI | TTAA | 2 cut(s) | 354, 402 |
| MslI | CAYNNNNRTG | 1 cut(s) | 301 |
| MspI | CCGG | 2 cut(s) | 198, 428 |
| MunI | CAATTG | 1 cut(s) | 547 |
| Mva1269I | GAATGC | 1 cut(s) | 308 |
| MwoI | GCNNNNNNNGC | 2 cut(s) | 317, 374 |
| NdeII | GATC | 1 cut(s) | 499 |
| NlaIII | CATG | 1 cut(s) | 816 |
| NlaIV | GGNNCC | 1 cut(s) | 144 |
| NmeAIII | GCCGAG | 1 cut(s) | 607 |
| NmuCI | GTSAC | 1 cut(s) | 291 |
| NsiI | ATGCAT | 1 cut(s) | 409 |
| PctI | GAATGC | 1 cut(s) | 308 |
| PfeI | GAWTC | 1 cut(s) | 629 |
| PkrI | GCNGC | 2 cut(s) | 322, 794 |
| PleI | GAGTC | 2 cut(s) | 263, 616 |
| PpsI | GAGTC | 2 cut(s) | 263, 616 |
| PpuMI | RGGWCCY | 1 cut(s) | 142 |
| PshAI | GACNNNNGTC | 1 cut(s) | 289 |
| Psp5II | RGGWCCY | 1 cut(s) | 142 |
| PspEI | GGTNACC | 1 cut(s) | 291 |
| PspN4I | GGNNCC | 1 cut(s) | 144 |
| PspPI | GGNCC | 1 cut(s) | 142 |
| PspPPI | RGGWCCY | 1 cut(s) | 142 |
| RsaI | GTAC | 1 cut(s) | 681 |
| RsaNI | GTAC | 1 cut(s) | 680 |
| RseI | CAYNNNNRTG | 1 cut(s) | 301 |
| SaqAI | TTAA | 2 cut(s) | 354, 402 |
| SatI | GCNGC | 2 cut(s) | 321, 793 |
| Sau3AI | GATC | 1 cut(s) | 499 |
| Sau96I | GGNCC | 1 cut(s) | 142 |
| SchI | GAGTC | 2 cut(s) | 263, 616 |
| SetI | ASST | 8 cut(s) | 33, 144, 322, 344, 354, 427, 450, 717 |
| SfaNI | GCATC | 1 cut(s) | 364 |
| SinI | GGWCC | 1 cut(s) | 142 |
| SmiMI | CAYNNNNRTG | 1 cut(s) | 301 |
| SmlI | CTYRAG | 1 cut(s) | 192 |
| SmoI | CTYRAG | 1 cut(s) | 192 |
| Sse9I | AATT | 8 cut(s) | 16, 93, 201, 327, 356, 522, 547, 597 |
| SsiI | CCGC | 5 cut(s) | 225, 368, 618, 792, 795 |
| SspI | AATATT | 1 cut(s) | 391 |
| TaaI | ACNGT | 2 cut(s) | 705, 784 |
| TaqI | TCGA | 1 cut(s) | 627 |
| TaqII | GACCGA | 2 cut(s) | 279, 775 |
| TasI | AATT | 8 cut(s) | 16, 93, 201, 327, 356, 522, 547, 597 |
| TatI | WGTACW | 1 cut(s) | 679 |
| TauI | GCSGC | 1 cut(s) | 795 |
| TfiI | GAWTC | 1 cut(s) | 629 |
| Tru1I | TTAA | 2 cut(s) | 354, 402 |
| Tru9I | TTAA | 2 cut(s) | 354, 402 |
| TseFI | GTSAC | 1 cut(s) | 291 |
| TseI | GCWGC | 1 cut(s) | 320 |
| Tsp45I | GTSAC | 1 cut(s) | 291 |
| TspDTI | ATGAA | 5 cut(s) | 17, 29, 320, 545, 577 |
| TspGWI | ACGGA | 1 cut(s) | 451 |
| VpaK11BI | GGWCC | 1 cut(s) | 142 |
| XapI | RAATTY | 2 cut(s) | 201, 327 |
| Zsp2I | ATGCAT | 1 cut(s) | 409 |