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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AccI | GTMKAC | 2 cut(s) | 69, 117 |
| AccII | CGCG | 5 cut(s) | 94, 199, 325, 358, 413 |
| AciI | CCGC | 9 cut(s) | 55, 92, 94, 168, 180, 305, 323, 356, 545 |
| AclWI | GGATC | 1 cut(s) | 451 |
| AcsI | RAATTY | 1 cut(s) | 463 |
| AfiI | CCNNNNNNNGG | 6 cut(s) | 46, 47, 93, 120, 379, 440 |
| AflIII | ACRYGT | 1 cut(s) | 411 |
| AgsI | TTSAA | 1 cut(s) | 511 |
| AjnI | CCWGG | 3 cut(s) | 22, 77, 378 |
| AluBI | AGCT | 3 cut(s) | 246, 320, 526 |
| AluI | AGCT | 3 cut(s) | 246, 320, 526 |
| Alw21I | GWGCWC | 1 cut(s) | 322 |
| AlwI | GGATC | 1 cut(s) | 451 |
| Ama87I | CYCGRG | 2 cut(s) | 332, 363 |
| AoxI | GGCC | 8 cut(s) | 36, 49, 96, 279, 300, 329, 393, 455 |
| ApaI | GGGCCC | 1 cut(s) | 459 |
| ApoI | RAATTY | 1 cut(s) | 463 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 506 |
| AspLEI | GCGC | 3 cut(s) | 29, 63, 360 |
| AspS9I | GGNCC | 9 cut(s) | 37, 49, 96, 123, 301, 330, 422, 455, 456 |
| AsuC2I | CCSGG | 3 cut(s) | 397, 460, 542 |
| AvaI | CYCGRG | 2 cut(s) | 332, 363 |
| AvaII | GGWCC | 2 cut(s) | 123, 422 |
| BaeGI | GKGCMC | 1 cut(s) | 459 |
| BanII | GRGCYC | 2 cut(s) | 322, 459 |
| BauI | CACGAG | 2 cut(s) | 315, 483 |
| BbsI | GAAGAC | 1 cut(s) | 408 |
| Bbv12I | GWGCWC | 1 cut(s) | 322 |
| BccI | CCATC | 1 cut(s) | 395 |
| BceAI | ACGGC | 3 cut(s) | 98, 344, 433 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 232, 266 |
| BciT130I | CCWGG | 3 cut(s) | 24, 79, 380 |
| BcnI | CCSGG | 3 cut(s) | 397, 460, 542 |
| BfaI | CTAG | 1 cut(s) | 351 |
| BglI | GCCNNNNNGGC | 1 cut(s) | 454 |
| BisI | GCNGC | 1 cut(s) | 546 |
| BlsI | GCNGC | 1 cut(s) | 547 |
| Bme1390I | CCNGG | 6 cut(s) | 24, 79, 380, 397, 460, 542 |
| Bme18I | GGWCC | 2 cut(s) | 123, 422 |
| BmeT110I | CYCGRG | 2 cut(s) | 332, 363 |
| BmgT120I | GGNCC | 9 cut(s) | 37, 49, 96, 123, 301, 330, 422, 455, 456 |
| BmiI | GGNNCC | 9 cut(s) | 39, 124, 175, 303, 423, 424, 456, 457, 458 |
| BmrFI | CCNGG | 6 cut(s) | 24, 79, 380, 397, 460, 542 |
| BmsI | GCATC | 3 cut(s) | 100, 212, 258 |
| BpiI | GAAGAC | 1 cut(s) | 408 |
| BpuEI | CTTGAG | 1 cut(s) | 283 |
| BpuMI | CCSGG | 3 cut(s) | 397, 460, 542 |
| Bsa29I | ATCGAT | 1 cut(s) | 108 |
| BsaJI | CCNNGG | 6 cut(s) | 77, 92, 378, 396, 458, 540 |
| Bsc4I | CCNNNNNNNGG | 6 cut(s) | 46, 47, 93, 120, 379, 440 |
| Bse118I | RCCGGY | 5 cut(s) | 57, 176, 298, 337, 470 |
| BseBI | CCWGG | 3 cut(s) | 24, 79, 380 |
| BseCI | ATCGAT | 1 cut(s) | 108 |
| BseDI | CCNNGG | 6 cut(s) | 77, 92, 378, 396, 458, 540 |
| BseGI | GGATG | 2 cut(s) | 273, 406 |
| BseLI | CCNNNNNNNGG | 6 cut(s) | 46, 47, 93, 120, 379, 440 |
| BseRI | GAGGAG | 1 cut(s) | 280 |
| BseSI | GKGCMC | 1 cut(s) | 459 |
| Bsh1236I | CGCG | 5 cut(s) | 94, 199, 325, 358, 413 |
| BshFI | GGCC | 8 cut(s) | 38, 51, 98, 281, 302, 331, 395, 457 |
| BshVI | ATCGAT | 1 cut(s) | 108 |
| BsiHKAI | GWGCWC | 1 cut(s) | 322 |
| BsiHKCI | CYCGRG | 2 cut(s) | 332, 363 |
| BsiSI | CCGG | 9 cut(s) | 58, 171, 177, 299, 338, 396, 460, 471, 542 |
| BslFI | GGGAC | 2 cut(s) | 136, 408 |
| BslI | CCNNNNNNNGG | 6 cut(s) | 46, 47, 93, 120, 379, 440 |
| BsmFI | GGGAC | 2 cut(s) | 136, 408 |
| BsnI | GGCC | 8 cut(s) | 38, 51, 98, 281, 302, 331, 395, 457 |
| BsoBI | CYCGRG | 2 cut(s) | 332, 363 |
| Bsp120I | GGGCCC | 1 cut(s) | 455 |
| Bsp1286I | GDGCHC | 2 cut(s) | 322, 459 |
| Bsp143I | GATC | 1 cut(s) | 443 |
| Bsp68I | TCGCGA | 1 cut(s) | 199 |
| BspACI | CCGC | 9 cut(s) | 55, 92, 94, 168, 180, 305, 323, 356, 545 |
| BspANI | GGCC | 8 cut(s) | 38, 51, 98, 281, 302, 331, 395, 457 |
| BspDI | ATCGAT | 1 cut(s) | 108 |
| BspFNI | CGCG | 5 cut(s) | 94, 199, 325, 358, 413 |
| BspLI | GGNNCC | 9 cut(s) | 39, 124, 175, 303, 423, 424, 456, 457, 458 |
| BspPI | GGATC | 1 cut(s) | 451 |
| BsrFI | RCCGGY | 5 cut(s) | 57, 176, 298, 337, 470 |
| BssAI | RCCGGY | 5 cut(s) | 57, 176, 298, 337, 470 |
| BssECI | CCNNGG | 6 cut(s) | 77, 92, 378, 396, 458, 540 |
| BssMI | GATC | 1 cut(s) | 443 |
| BssSI | CACGAG | 2 cut(s) | 315, 483 |
| Bst2BI | CACGAG | 2 cut(s) | 315, 483 |
| Bst2UI | CCWGG | 3 cut(s) | 24, 79, 380 |
| BstC8I | GCNNGC | 7 cut(s) | 59, 96, 178, 201, 255, 300, 356 |
| BstDSI | CCRYGG | 1 cut(s) | 92 |
| BstEII | GGTNACC | 1 cut(s) | 368 |
| BstF5I | GGATG | 2 cut(s) | 273, 406 |
| BstFNI | CGCG | 5 cut(s) | 94, 199, 325, 358, 413 |
| BstHHI | GCGC | 3 cut(s) | 29, 63, 360 |
| BstKTI | GATC | 1 cut(s) | 446 |
| BstMBI | GATC | 1 cut(s) | 443 |
| BstMWI | GCNNNNNNNGC | 4 cut(s) | 35, 304, 445, 454 |
| BstNI | CCWGG | 3 cut(s) | 24, 79, 380 |
| BstPI | GGTNACC | 1 cut(s) | 368 |
| BstSCI | CCNGG | 6 cut(s) | 22, 77, 378, 395, 458, 540 |
| BstSLI | GKGCMC | 1 cut(s) | 459 |
| BstUI | CGCG | 5 cut(s) | 94, 199, 325, 358, 413 |
| BstV2I | GAAGAC | 1 cut(s) | 408 |
| Bsu15I | ATCGAT | 1 cut(s) | 108 |
| BsuRI | GGCC | 8 cut(s) | 38, 51, 98, 281, 302, 331, 395, 457 |
| BsuTUI | ATCGAT | 1 cut(s) | 108 |
| BtgI | CCRYGG | 1 cut(s) | 92 |
| BtsCI | GGATG | 2 cut(s) | 273, 406 |
| BtuMI | TCGCGA | 1 cut(s) | 199 |
| Cac8I | GCNNGC | 7 cut(s) | 59, 96, 178, 201, 255, 300, 356 |
| CfoI | GCGC | 3 cut(s) | 29, 63, 360 |
| Cfr10I | RCCGGY | 5 cut(s) | 57, 176, 298, 337, 470 |
| Cfr13I | GGNCC | 9 cut(s) | 37, 49, 96, 123, 301, 330, 422, 455, 456 |
| Cfr42I | CCGCGG | 1 cut(s) | 95 |
| ClaI | ATCGAT | 1 cut(s) | 108 |
| CseI | GACGC | 1 cut(s) | 402 |
| DpnI | GATC | 1 cut(s) | 445 |
| DpnII | GATC | 1 cut(s) | 443 |
| EciI | GGCGGA | 1 cut(s) | 44 |
| Ecl136II | GAGCTC | 1 cut(s) | 320 |
| Eco24I | GRGCYC | 2 cut(s) | 322, 459 |
| Eco32I | GATATC | 2 cut(s) | 106, 430 |
| Eco47I | GGWCC | 2 cut(s) | 123, 422 |
| Eco53kI | GAGCTC | 1 cut(s) | 320 |
| Eco88I | CYCGRG | 2 cut(s) | 332, 363 |
| Eco91I | GGTNACC | 1 cut(s) | 368 |
| EcoICRI | GAGCTC | 1 cut(s) | 320 |
| EcoO109I | RGGNCCY | 3 cut(s) | 422, 455, 456 |
| EcoO65I | GGTNACC | 1 cut(s) | 368 |
| EcoRI | GAATTC | 1 cut(s) | 463 |
| EcoRII | CCWGG | 3 cut(s) | 22, 77, 378 |
| EcoRV | GATATC | 2 cut(s) | 106, 430 |
| EcoT38I | GRGCYC | 2 cut(s) | 322, 459 |
| FaiI | YATR | 2 cut(s) | 138, 185 |
| FaqI | GGGAC | 2 cut(s) | 136, 408 |
| FauI | CCCGC | 4 cut(s) | 87, 99, 312, 363 |
| FblI | GTMKAC | 2 cut(s) | 69, 117 |
| Fnu4HI | GCNGC | 1 cut(s) | 546 |
| FokI | GGATG | 2 cut(s) | 280, 413 |
| FriOI | GRGCYC | 2 cut(s) | 322, 459 |
| Fsp4HI | GCNGC | 1 cut(s) | 546 |
| FspBI | CTAG | 1 cut(s) | 351 |
| GlaI | GCGC | 3 cut(s) | 28, 62, 359 |
| GluI | GCNGC | 1 cut(s) | 546 |
| HaeIII | GGCC | 8 cut(s) | 38, 51, 98, 281, 302, 331, 395, 457 |
| HapII | CCGG | 9 cut(s) | 58, 171, 177, 299, 338, 396, 460, 471, 542 |
| HgaI | GACGC | 1 cut(s) | 402 |
| HhaI | GCGC | 3 cut(s) | 29, 63, 360 |
| Hin6I | GCGC | 3 cut(s) | 27, 61, 358 |
| HinP1I | GCGC | 3 cut(s) | 27, 61, 358 |
| HincII | GTYRAC | 2 cut(s) | 84, 165 |
| HindII | GTYRAC | 2 cut(s) | 84, 165 |
| HinfI | GANTC | 2 cut(s) | 32, 534 |
| HpaII | CCGG | 9 cut(s) | 58, 171, 177, 299, 338, 396, 460, 471, 542 |
| Hpy166II | GTNNAC | 4 cut(s) | 70, 84, 118, 165 |
| Hpy188I | TCNGA | 2 cut(s) | 295, 443 |
| Hpy188III | TCNNGA | 4 cut(s) | 198, 262, 425, 483 |
| Hpy8I | GTNNAC | 4 cut(s) | 70, 84, 118, 165 |
| Hpy99I | CGWCG | 2 cut(s) | 330, 454 |
| HpyAV | CCTTC | 2 cut(s) | 97, 125 |
| HpyCH4V | TGCA | 1 cut(s) | 4 |
| HpyF10VI | GCNNNNNNNGC | 4 cut(s) | 35, 304, 445, 454 |
| HspAI | GCGC | 3 cut(s) | 27, 61, 358 |
| KflI | GGGWCCC | 1 cut(s) | 422 |
| KroI | GCCGGC | 3 cut(s) | 57, 176, 298 |
| KroNI | GCCGGC | 3 cut(s) | 59, 178, 300 |
| KspI | CCGCGG | 1 cut(s) | 95 |
| Kzo9I | GATC | 1 cut(s) | 443 |
| LmnI | GCTCC | 2 cut(s) | 173, 325 |
| LweI | GCATC | 3 cut(s) | 100, 212, 258 |
| MaeI | CTAG | 1 cut(s) | 351 |
| MaeIII | GTNAC | 2 cut(s) | 368, 480 |
| MalI | GATC | 1 cut(s) | 445 |
| MboI | GATC | 1 cut(s) | 443 |
| MboII | GAAGA | 6 cut(s) | 140, 152, 164, 186, 408, 468 |
| MhlI | GDGCHC | 2 cut(s) | 322, 459 |
| MluCI | AATT | 1 cut(s) | 463 |
| MluI | ACGCGT | 1 cut(s) | 411 |
| MnlI | CCTC | 8 cut(s) | 51, 62, 258, 298, 301, 359, 385, 385 |
| MreI | CGCCGGCG | 1 cut(s) | 57 |
| MroNI | GCCGGC | 3 cut(s) | 57, 176, 298 |
| MroXI | GAANNNNTTC | 1 cut(s) | 506 |
| MseI | TTAA | 1 cut(s) | 550 |
| MspA1I | CMGCKG | 1 cut(s) | 94 |
| MspI | CCGG | 9 cut(s) | 58, 171, 177, 299, 338, 396, 460, 471, 542 |
| MspR9I | CCNGG | 6 cut(s) | 24, 79, 380, 397, 460, 542 |
| MvaI | CCWGG | 3 cut(s) | 24, 79, 380 |
| MvnI | CGCG | 5 cut(s) | 94, 199, 325, 358, 413 |
| MwoI | GCNNNNNNNGC | 4 cut(s) | 35, 304, 445, 454 |
| NaeI | GCCGGC | 3 cut(s) | 59, 178, 300 |
| NciI | CCSGG | 3 cut(s) | 397, 460, 542 |
| NdeII | GATC | 1 cut(s) | 443 |
| NgoMIV | GCCGGC | 3 cut(s) | 57, 176, 298 |
| NlaIV | GGNNCC | 9 cut(s) | 39, 124, 175, 303, 423, 424, 456, 457, 458 |
| NmeAIII | GCCGAG | 1 cut(s) | 257 |
| NmuCI | GTSAC | 1 cut(s) | 480 |
| NruI | TCGCGA | 1 cut(s) | 199 |
| PaeR7I | CTCGAG | 1 cut(s) | 363 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 322 |
| PdiI | GCCGGC | 3 cut(s) | 59, 178, 300 |
| PdmI | GAANNNNTTC | 1 cut(s) | 506 |
| PfeI | GAWTC | 2 cut(s) | 32, 534 |
| PkrI | GCNGC | 1 cut(s) | 547 |
| PpuMI | RGGWCCY | 1 cut(s) | 422 |
| Psp124BI | GAGCTC | 1 cut(s) | 322 |
| Psp5II | RGGWCCY | 1 cut(s) | 422 |
| Psp6I | CCWGG | 3 cut(s) | 22, 77, 378 |
| PspEI | GGTNACC | 1 cut(s) | 368 |
| PspGI | CCWGG | 3 cut(s) | 22, 77, 378 |
| PspN4I | GGNNCC | 9 cut(s) | 39, 124, 175, 303, 423, 424, 456, 457, 458 |
| PspOMI | GGGCCC | 1 cut(s) | 455 |
| PspPI | GGNCC | 9 cut(s) | 37, 49, 96, 123, 301, 330, 422, 455, 456 |
| PspPPI | RGGWCCY | 1 cut(s) | 422 |
| PspXI | VCTCGAGB | 1 cut(s) | 363 |
| RruI | TCGCGA | 1 cut(s) | 199 |
| SacI | GAGCTC | 1 cut(s) | 322 |
| SacII | CCGCGG | 1 cut(s) | 95 |
| SaqAI | TTAA | 1 cut(s) | 550 |
| SatI | GCNGC | 1 cut(s) | 546 |
| Sau3AI | GATC | 1 cut(s) | 443 |
| Sau96I | GGNCC | 9 cut(s) | 37, 49, 96, 123, 301, 330, 422, 455, 456 |
| ScrFI | CCNGG | 6 cut(s) | 24, 79, 380, 397, 460, 542 |
| SduI | GDGCHC | 2 cut(s) | 322, 459 |
| SetI | ASST | 6 cut(s) | 89, 248, 322, 370, 384, 528 |
| SfaNI | GCATC | 3 cut(s) | 100, 212, 258 |
| Sfr274I | CTCGAG | 1 cut(s) | 363 |
| Sfr303I | CCGCGG | 1 cut(s) | 95 |
| SgrAI | CRCCGGYG | 1 cut(s) | 57 |
| SgrBI | CCGCGG | 1 cut(s) | 95 |
| SinI | GGWCC | 2 cut(s) | 123, 422 |
| SlaI | CTCGAG | 1 cut(s) | 363 |
| SmlI | CTYRAG | 2 cut(s) | 262, 363 |
| SmoI | CTYRAG | 2 cut(s) | 262, 363 |
| Sse9I | AATT | 1 cut(s) | 463 |
| SsiI | CCGC | 9 cut(s) | 55, 92, 94, 168, 180, 305, 323, 356, 545 |
| SspMI | CTAG | 1 cut(s) | 351 |
| SstI | GAGCTC | 1 cut(s) | 322 |
| StyD4I | CCNGG | 6 cut(s) | 22, 77, 378, 395, 458, 540 |
| TaqI | TCGA | 4 cut(s) | 108, 236, 242, 364 |
| TaqII | GACCGA | 1 cut(s) | 140 |
| TasI | AATT | 1 cut(s) | 463 |
| TauI | GCSGC | 1 cut(s) | 548 |
| TfiI | GAWTC | 2 cut(s) | 32, 534 |
| Tru1I | TTAA | 1 cut(s) | 550 |
| Tru9I | TTAA | 1 cut(s) | 550 |
| TseFI | GTSAC | 1 cut(s) | 480 |
| Tsp45I | GTSAC | 1 cut(s) | 480 |
| TspDTI | ATGAA | 2 cut(s) | 153, 203 |
| TspGWI | ACGGA | 2 cut(s) | 21, 361 |
| VpaK11BI | GGWCC | 2 cut(s) | 123, 422 |
| XapI | RAATTY | 1 cut(s) | 463 |
| XhoI | CTCGAG | 1 cut(s) | 363 |
| XmiI | GTMKAC | 2 cut(s) | 69, 117 |
| XmnI | GAANNNNTTC | 1 cut(s) | 506 |
| XspI | CTAG | 1 cut(s) | 351 |