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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AciI | CCGC | 2 cut(s) | 149, 163 |
| AcoI | YGGCCR | 1 cut(s) | 357 |
| AcsI | RAATTY | 3 cut(s) | 237, 287, 313 |
| AcuI | CTGAAG | 1 cut(s) | 329 |
| AflIII | ACRYGT | 1 cut(s) | 207 |
| AgsI | TTSAA | 2 cut(s) | 92, 302 |
| AhlI | ACTAGT | 1 cut(s) | 167 |
| AjnI | CCWGG | 1 cut(s) | 187 |
| AluBI | AGCT | 3 cut(s) | 103, 143, 225 |
| AluI | AGCT | 3 cut(s) | 103, 143, 225 |
| AoxI | GGCC | 2 cut(s) | 199, 357 |
| ApeKI | GCWGC | 1 cut(s) | 18 |
| ApoI | RAATTY | 3 cut(s) | 237, 287, 313 |
| AspS9I | GGNCC | 1 cut(s) | 199 |
| AsuC2I | CCSGG | 1 cut(s) | 203 |
| AsuHPI | GGTGA | 1 cut(s) | 232 |
| BalI | TGGCCA | 1 cut(s) | 359 |
| BarI | GAAGNNNNNNTAC | 2 cut(s) | 237, 269 |
| BbvI | GCAGC | 1 cut(s) | 5 |
| BccI | CCATC | 1 cut(s) | 226 |
| BciT130I | CCWGG | 1 cut(s) | 189 |
| BcnI | CCSGG | 1 cut(s) | 203 |
| BcuI | ACTAGT | 1 cut(s) | 167 |
| BfaI | CTAG | 4 cut(s) | 125, 168, 242, 258 |
| BfmI | CTRYAG | 1 cut(s) | 387 |
| BisI | GCNGC | 2 cut(s) | 19, 150 |
| BlsI | GCNGC | 2 cut(s) | 20, 151 |
| Bme1390I | CCNGG | 2 cut(s) | 189, 203 |
| BmgT120I | GGNCC | 1 cut(s) | 199 |
| BmrFI | CCNGG | 2 cut(s) | 189, 203 |
| BmsI | GCATC | 1 cut(s) | 316 |
| Bpu10I | CCTNAGC | 1 cut(s) | 144 |
| BpuMI | CCSGG | 1 cut(s) | 203 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 169, 199 |
| Bse3DI | GCAATG | 1 cut(s) | 21 |
| BseBI | CCWGG | 1 cut(s) | 189 |
| BseMI | GCAATG | 1 cut(s) | 21 |
| BseXI | GCAGC | 1 cut(s) | 5 |
| BshFI | GGCC | 2 cut(s) | 201, 359 |
| BsiSI | CCGG | 1 cut(s) | 202 |
| BslFI | GGGAC | 1 cut(s) | 218 |
| BsmFI | GGGAC | 1 cut(s) | 218 |
| BsnI | GGCC | 2 cut(s) | 201, 359 |
| BspACI | CCGC | 2 cut(s) | 149, 163 |
| BspANI | GGCC | 2 cut(s) | 201, 359 |
| BspHI | TCATGA | 1 cut(s) | 40 |
| BsrDI | GCAATG | 1 cut(s) | 21 |
| Bst2UI | CCWGG | 1 cut(s) | 189 |
| Bst4CI | ACNGT | 1 cut(s) | 8 |
| BstC8I | GCNNGC | 1 cut(s) | 163 |
| BstDEI | CTNAG | 2 cut(s) | 71, 144 |
| BstMWI | GCNNNNNNNGC | 2 cut(s) | 149, 158 |
| BstNI | CCWGG | 1 cut(s) | 189 |
| BstNSI | RCATGY | 1 cut(s) | 211 |
| BstSCI | CCNGG | 2 cut(s) | 187, 201 |
| BstSFI | CTRYAG | 1 cut(s) | 387 |
| BstV1I | GCAGC | 1 cut(s) | 5 |
| BsuRI | GGCC | 2 cut(s) | 201, 359 |
| Cac8I | GCNNGC | 1 cut(s) | 163 |
| CciI | TCATGA | 1 cut(s) | 40 |
| Cfr13I | GGNCC | 1 cut(s) | 199 |
| CviAII | CATG | 3 cut(s) | 41, 208, 399 |
| CviJI | RGCY | 6 cut(s) | 103, 143, 152, 201, 225, 359 |
| CviKI_1 | RGCY | 6 cut(s) | 103, 143, 152, 201, 225, 359 |
| DdeI | CTNAG | 2 cut(s) | 71, 144 |
| EaeI | YGGCCR | 1 cut(s) | 357 |
| Eco57I | CTGAAG | 1 cut(s) | 329 |
| EcoRI | GAATTC | 1 cut(s) | 237 |
| EcoRII | CCWGG | 1 cut(s) | 187 |
| FaeI | CATG | 3 cut(s) | 44, 211, 402 |
| FaiI | YATR | 5 cut(s) | 42, 67, 209, 213, 400 |
| FaqI | GGGAC | 1 cut(s) | 218 |
| FatI | CATG | 3 cut(s) | 40, 207, 398 |
| FauI | CCCGC | 1 cut(s) | 170 |
| Fnu4HI | GCNGC | 2 cut(s) | 19, 150 |
| Fsp4HI | GCNGC | 2 cut(s) | 19, 150 |
| FspBI | CTAG | 4 cut(s) | 125, 168, 242, 258 |
| GluI | GCNGC | 2 cut(s) | 19, 150 |
| HaeIII | GGCC | 2 cut(s) | 201, 359 |
| HapII | CCGG | 1 cut(s) | 202 |
| Hin1II | CATG | 3 cut(s) | 44, 211, 402 |
| HinfI | GANTC | 2 cut(s) | 44, 113 |
| HpaII | CCGG | 1 cut(s) | 202 |
| HphI | GGTGA | 1 cut(s) | 232 |
| Hpy166II | GTNNAC | 1 cut(s) | 250 |
| Hpy188I | TCNGA | 1 cut(s) | 58 |
| Hpy188III | TCNNGA | 3 cut(s) | 41, 92, 242 |
| Hpy8I | GTNNAC | 1 cut(s) | 250 |
| HpyAV | CCTTC | 1 cut(s) | 374 |
| HpyCH4III | ACNGT | 1 cut(s) | 8 |
| HpyCH4V | TGCA | 2 cut(s) | 21, 26 |
| HpyF10VI | GCNNNNNNNGC | 2 cut(s) | 149, 158 |
| HpyF3I | CTNAG | 2 cut(s) | 71, 144 |
| Hsp92II | CATG | 3 cut(s) | 44, 211, 402 |
| LmnI | GCTCC | 1 cut(s) | 190 |
| LpnPI | CCDG | 7 cut(s) | 171, 174, 182, 201, 215, 320, 345 |
| Lsp1109I | GCAGC | 1 cut(s) | 5 |
| LweI | GCATC | 1 cut(s) | 316 |
| MaeI | CTAG | 4 cut(s) | 125, 168, 242, 258 |
| MboII | GAAGA | 4 cut(s) | 77, 80, 322, 357 |
| MlsI | TGGCCA | 1 cut(s) | 359 |
| MluCI | AATT | 3 cut(s) | 237, 287, 313 |
| MluNI | TGGCCA | 1 cut(s) | 359 |
| MlyI | GAGTC | 1 cut(s) | 107 |
| MmeI | TCCRAC | 1 cut(s) | 198 |
| Mox20I | TGGCCA | 1 cut(s) | 359 |
| MscI | TGGCCA | 1 cut(s) | 359 |
| MseI | TTAA | 1 cut(s) | 291 |
| Msp20I | TGGCCA | 1 cut(s) | 359 |
| MspI | CCGG | 1 cut(s) | 202 |
| MspR9I | CCNGG | 2 cut(s) | 189, 203 |
| MvaI | CCWGG | 1 cut(s) | 189 |
| MwoI | GCNNNNNNNGC | 2 cut(s) | 149, 158 |
| NciI | CCSGG | 1 cut(s) | 203 |
| NlaIII | CATG | 3 cut(s) | 44, 211, 402 |
| NspI | RCATGY | 1 cut(s) | 211 |
| PagI | TCATGA | 1 cut(s) | 40 |
| PciI | ACATGT | 1 cut(s) | 207 |
| PfeI | GAWTC | 1 cut(s) | 44 |
| PkrI | GCNGC | 2 cut(s) | 20, 151 |
| PleI | GAGTC | 1 cut(s) | 107 |
| PpsI | GAGTC | 1 cut(s) | 107 |
| PscI | ACATGT | 1 cut(s) | 207 |
| Psp6I | CCWGG | 1 cut(s) | 187 |
| PspGI | CCWGG | 1 cut(s) | 187 |
| PspPI | GGNCC | 1 cut(s) | 199 |
| SaqAI | TTAA | 1 cut(s) | 291 |
| SatI | GCNGC | 2 cut(s) | 19, 150 |
| Sau96I | GGNCC | 1 cut(s) | 199 |
| SchI | GAGTC | 1 cut(s) | 107 |
| ScrFI | CCNGG | 2 cut(s) | 189, 203 |
| SetI | ASST | 7 cut(s) | 105, 130, 145, 227, 259, 309, 385 |
| SfaNI | GCATC | 1 cut(s) | 316 |
| SfcI | CTRYAG | 1 cut(s) | 387 |
| SpeI | ACTAGT | 1 cut(s) | 167 |
| Sse9I | AATT | 3 cut(s) | 237, 287, 313 |
| SsiI | CCGC | 2 cut(s) | 149, 163 |
| SspMI | CTAG | 4 cut(s) | 125, 168, 242, 258 |
| StyD4I | CCNGG | 2 cut(s) | 187, 201 |
| TaaI | ACNGT | 1 cut(s) | 8 |
| TasI | AATT | 3 cut(s) | 237, 287, 313 |
| TauI | GCSGC | 1 cut(s) | 152 |
| TfiI | GAWTC | 1 cut(s) | 44 |
| Tru1I | TTAA | 1 cut(s) | 291 |
| Tru9I | TTAA | 1 cut(s) | 291 |
| TseI | GCWGC | 1 cut(s) | 18 |
| TspDTI | ATGAA | 4 cut(s) | 17, 36, 71, 393 |
| XapI | RAATTY | 3 cut(s) | 237, 287, 313 |
| XbaI | TCTAGA | 1 cut(s) | 241 |
| XceI | RCATGY | 1 cut(s) | 211 |
| XspI | CTAG | 4 cut(s) | 125, 168, 242, 258 |