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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AciI | CCGC | 2 cut(s) | 16, 25 |
| AcoI | YGGCCR | 1 cut(s) | 13 |
| AfaI | GTAC | 2 cut(s) | 72, 147 |
| AgsI | TTSAA | 2 cut(s) | 227, 404 |
| AjnI | CCWGG | 2 cut(s) | 190, 394 |
| AluBI | AGCT | 2 cut(s) | 65, 308 |
| AluI | AGCT | 2 cut(s) | 65, 308 |
| Alw26I | GTCTC | 1 cut(s) | 146 |
| AoxI | GGCC | 2 cut(s) | 13, 128 |
| ApeKI | GCWGC | 1 cut(s) | 349 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 363 |
| AsuHPI | GGTGA | 1 cut(s) | 72 |
| BaeGI | GKGCMC | 1 cut(s) | 198 |
| BanII | GRGCYC | 1 cut(s) | 328 |
| BbvI | GCAGC | 1 cut(s) | 361 |
| BciT130I | CCWGG | 2 cut(s) | 192, 396 |
| BcoDI | GTCTC | 1 cut(s) | 146 |
| BfaI | CTAG | 1 cut(s) | 107 |
| BfmI | CTRYAG | 1 cut(s) | 309 |
| BglII | AGATCT | 1 cut(s) | 35 |
| BisI | GCNGC | 2 cut(s) | 16, 350 |
| BlsI | GCNGC | 2 cut(s) | 17, 351 |
| Bme1390I | CCNGG | 2 cut(s) | 192, 396 |
| BmrFI | CCNGG | 2 cut(s) | 192, 396 |
| BmrI | ACTGGG | 1 cut(s) | 297 |
| BmsI | GCATC | 1 cut(s) | 311 |
| BmuI | ACTGGG | 1 cut(s) | 297 |
| BpmI | CTGGAG | 1 cut(s) | 378 |
| BpuEI | CTTGAG | 2 cut(s) | 170, 255 |
| BsaJI | CCNNGG | 2 cut(s) | 190, 191 |
| Bse1I | ACTGG | 1 cut(s) | 292 |
| Bse3DI | GCAATG | 2 cut(s) | 198, 297 |
| BseBI | CCWGG | 2 cut(s) | 192, 396 |
| BseDI | CCNNGG | 2 cut(s) | 190, 191 |
| BseGI | GGATG | 1 cut(s) | 230 |
| BseMI | GCAATG | 2 cut(s) | 198, 297 |
| BseNI | ACTGG | 1 cut(s) | 292 |
| BseRI | GAGGAG | 1 cut(s) | 367 |
| BseSI | GKGCMC | 1 cut(s) | 198 |
| BseXI | GCAGC | 1 cut(s) | 361 |
| BshFI | GGCC | 2 cut(s) | 15, 130 |
| BslFI | GGGAC | 1 cut(s) | 260 |
| BsmAI | GTCTC | 1 cut(s) | 146 |
| BsmFI | GGGAC | 1 cut(s) | 260 |
| BsnI | GGCC | 2 cut(s) | 15, 130 |
| Bsp1286I | GDGCHC | 2 cut(s) | 198, 328 |
| Bsp1407I | TGTACA | 1 cut(s) | 70 |
| Bsp143I | GATC | 3 cut(s) | 35, 97, 262 |
| BspACI | CCGC | 2 cut(s) | 16, 25 |
| BspANI | GGCC | 2 cut(s) | 15, 130 |
| BsrDI | GCAATG | 2 cut(s) | 198, 297 |
| BsrGI | TGTACA | 1 cut(s) | 70 |
| BsrI | ACTGG | 1 cut(s) | 292 |
| BssECI | CCNNGG | 2 cut(s) | 190, 191 |
| BssMI | GATC | 3 cut(s) | 35, 97, 262 |
| Bst2UI | CCWGG | 2 cut(s) | 192, 396 |
| Bst4CI | ACNGT | 3 cut(s) | 70, 145, 313 |
| BstAUI | TGTACA | 1 cut(s) | 70 |
| BstC8I | GCNNGC | 2 cut(s) | 20, 29 |
| BstDEI | CTNAG | 2 cut(s) | 55, 383 |
| BstF5I | GGATG | 1 cut(s) | 230 |
| BstKTI | GATC | 3 cut(s) | 38, 100, 265 |
| BstMAI | GTCTC | 1 cut(s) | 146 |
| BstMBI | GATC | 3 cut(s) | 35, 97, 262 |
| BstMWI | GCNNNNNNNGC | 4 cut(s) | 15, 24, 28, 388 |
| BstNI | CCWGG | 2 cut(s) | 192, 396 |
| BstSCI | CCNGG | 2 cut(s) | 190, 394 |
| BstSFI | CTRYAG | 1 cut(s) | 309 |
| BstSLI | GKGCMC | 1 cut(s) | 198 |
| BstV1I | GCAGC | 1 cut(s) | 361 |
| BstX2I | RGATCY | 1 cut(s) | 35 |
| BstYI | RGATCY | 1 cut(s) | 35 |
| BsuRI | GGCC | 2 cut(s) | 15, 130 |
| BtsCI | GGATG | 1 cut(s) | 230 |
| Cac8I | GCNNGC | 2 cut(s) | 20, 29 |
| Csp6I | GTAC | 2 cut(s) | 71, 146 |
| CviAII | CATG | 3 cut(s) | 50, 211, 254 |
| CviJI | RGCY | 9 cut(s) | 9, 15, 31, 59, 65, 130, 292, 308, 326 |
| CviKI_1 | RGCY | 9 cut(s) | 9, 15, 31, 59, 65, 130, 292, 308, 326 |
| CviQI | GTAC | 2 cut(s) | 71, 146 |
| DdeI | CTNAG | 2 cut(s) | 55, 383 |
| DpnI | GATC | 3 cut(s) | 37, 99, 264 |
| DpnII | GATC | 3 cut(s) | 35, 97, 262 |
| EaeI | YGGCCR | 1 cut(s) | 13 |
| Eco147I | AGGCCT | 1 cut(s) | 130 |
| Eco24I | GRGCYC | 1 cut(s) | 328 |
| EcoRII | CCWGG | 2 cut(s) | 190, 394 |
| EcoT38I | GRGCYC | 1 cut(s) | 328 |
| FaeI | CATG | 3 cut(s) | 53, 214, 257 |
| FaiI | YATR | 5 cut(s) | 51, 212, 255, 267, 320 |
| FaqI | GGGAC | 1 cut(s) | 260 |
| FatI | CATG | 3 cut(s) | 49, 210, 253 |
| Fnu4HI | GCNGC | 2 cut(s) | 16, 350 |
| FokI | GGATG | 1 cut(s) | 217 |
| FriOI | GRGCYC | 1 cut(s) | 328 |
| Fsp4HI | GCNGC | 2 cut(s) | 16, 350 |
| FspBI | CTAG | 1 cut(s) | 107 |
| GluI | GCNGC | 2 cut(s) | 16, 350 |
| GsuI | CTGGAG | 1 cut(s) | 378 |
| HaeIII | GGCC | 2 cut(s) | 15, 130 |
| Hin1II | CATG | 3 cut(s) | 53, 214, 257 |
| HincII | GTYRAC | 1 cut(s) | 172 |
| HindII | GTYRAC | 1 cut(s) | 172 |
| HphI | GGTGA | 1 cut(s) | 72 |
| Hpy166II | GTNNAC | 1 cut(s) | 172 |
| Hpy188I | TCNGA | 2 cut(s) | 235, 369 |
| Hpy188III | TCNNGA | 2 cut(s) | 95, 260 |
| Hpy8I | GTNNAC | 1 cut(s) | 172 |
| HpyAV | CCTTC | 1 cut(s) | 208 |
| HpyCH4III | ACNGT | 3 cut(s) | 70, 145, 313 |
| HpyCH4IV | ACGT | 1 cut(s) | 91 |
| HpyCH4V | TGCA | 2 cut(s) | 302, 349 |
| HpyF10VI | GCNNNNNNNGC | 4 cut(s) | 15, 24, 28, 388 |
| HpyF3I | CTNAG | 2 cut(s) | 55, 383 |
| HpySE526I | ACGT | 1 cut(s) | 91 |
| Hsp92II | CATG | 3 cut(s) | 53, 214, 257 |
| Kzo9I | GATC | 3 cut(s) | 35, 97, 262 |
| LmnI | GCTCC | 1 cut(s) | 208 |
| Lsp1109I | GCAGC | 1 cut(s) | 361 |
| LweI | GCATC | 1 cut(s) | 311 |
| MaeI | CTAG | 1 cut(s) | 107 |
| MaeII | ACGT | 1 cut(s) | 91 |
| MalI | GATC | 3 cut(s) | 37, 99, 264 |
| MboI | GATC | 3 cut(s) | 35, 97, 262 |
| MboII | GAAGA | 1 cut(s) | 371 |
| MflI | RGATCY | 1 cut(s) | 35 |
| MhlI | GDGCHC | 2 cut(s) | 198, 328 |
| MmeI | TCCRAC | 1 cut(s) | 258 |
| MnlI | CCTC | 8 cut(s) | 88, 160, 168, 217, 328, 385, 388, 402 |
| MroXI | GAANNNNTTC | 1 cut(s) | 363 |
| MseI | TTAA | 1 cut(s) | 182 |
| MspR9I | CCNGG | 2 cut(s) | 192, 396 |
| MvaI | CCWGG | 2 cut(s) | 192, 396 |
| MwoI | GCNNNNNNNGC | 4 cut(s) | 15, 24, 28, 388 |
| NdeII | GATC | 3 cut(s) | 35, 97, 262 |
| NlaIII | CATG | 3 cut(s) | 53, 214, 257 |
| NmeAIII | GCCGAG | 1 cut(s) | 57 |
| PasI | CCCWGGG | 1 cut(s) | 191 |
| PceI | AGGCCT | 1 cut(s) | 130 |
| PdmI | GAANNNNTTC | 1 cut(s) | 363 |
| PkrI | GCNGC | 2 cut(s) | 17, 351 |
| Psp6I | CCWGG | 2 cut(s) | 190, 394 |
| PspGI | CCWGG | 2 cut(s) | 190, 394 |
| PsuI | RGATCY | 1 cut(s) | 35 |
| RsaI | GTAC | 2 cut(s) | 72, 147 |
| RsaNI | GTAC | 2 cut(s) | 71, 146 |
| SaqAI | TTAA | 1 cut(s) | 182 |
| SatI | GCNGC | 2 cut(s) | 16, 350 |
| Sau3AI | GATC | 3 cut(s) | 35, 97, 262 |
| ScrFI | CCNGG | 2 cut(s) | 192, 396 |
| SduI | GDGCHC | 2 cut(s) | 198, 328 |
| SetI | ASST | 9 cut(s) | 67, 94, 115, 160, 171, 219, 310, 400, 412 |
| SfaNI | GCATC | 1 cut(s) | 311 |
| SfcI | CTRYAG | 1 cut(s) | 309 |
| SmlI | CTYRAG | 2 cut(s) | 149, 270 |
| SmoI | CTYRAG | 2 cut(s) | 149, 270 |
| SseBI | AGGCCT | 1 cut(s) | 130 |
| SsiI | CCGC | 2 cut(s) | 16, 25 |
| SspMI | CTAG | 1 cut(s) | 107 |
| StuI | AGGCCT | 1 cut(s) | 130 |
| StyD4I | CCNGG | 2 cut(s) | 190, 394 |
| TaaI | ACNGT | 3 cut(s) | 70, 145, 313 |
| TaiI | ACGT | 1 cut(s) | 94 |
| TaqI | TCGA | 1 cut(s) | 261 |
| TatI | WGTACW | 2 cut(s) | 70, 145 |
| TauI | GCSGC | 1 cut(s) | 18 |
| Tru1I | TTAA | 1 cut(s) | 182 |
| Tru9I | TTAA | 1 cut(s) | 182 |
| TseI | GCWGC | 1 cut(s) | 349 |
| TspDTI | ATGAA | 2 cut(s) | 227, 307 |
| TspGWI | ACGGA | 1 cut(s) | 347 |
| XcmI | CCANNNNNNNNNTGG | 2 cut(s) | 217, 245 |
| XmnI | GAANNNNTTC | 1 cut(s) | 363 |
| XspI | CTAG | 1 cut(s) | 107 |