Integrase core domain
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AciI | CCGC | 2 cut(s) | 58, 62 |
| AclWI | GGATC | 1 cut(s) | 346 |
| AcoI | YGGCCR | 1 cut(s) | 59 |
| AcsI | RAATTY | 2 cut(s) | 161, 284 |
| AfaI | GTAC | 3 cut(s) | 184, 224, 378 |
| AgsI | TTSAA | 3 cut(s) | 109, 281, 296 |
| AluBI | AGCT | 4 cut(s) | 32, 140, 215, 409 |
| AluI | AGCT | 4 cut(s) | 32, 140, 215, 409 |
| Alw26I | GTCTC | 1 cut(s) | 45 |
| AlwI | GGATC | 1 cut(s) | 346 |
| AoxI | GGCC | 1 cut(s) | 59 |
| ApeKI | GCWGC | 3 cut(s) | 212, 406, 409 |
| ApoI | RAATTY | 2 cut(s) | 161, 284 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 393 |
| AsuC2I | CCSGG | 1 cut(s) | 302 |
| BaeI | ACNNNNGTAYC | 2 cut(s) | 174, 207 |
| BauI | CACGAG | 1 cut(s) | 356 |
| BbvI | GCAGC | 3 cut(s) | 224, 396, 418 |
| BceAI | ACGGC | 1 cut(s) | 359 |
| BclI | TGATCA | 1 cut(s) | 205 |
| BcnI | CCSGG | 1 cut(s) | 302 |
| BcoDI | GTCTC | 1 cut(s) | 45 |
| BfaI | CTAG | 3 cut(s) | 38, 137, 430 |
| BisI | GCNGC | 5 cut(s) | 59, 62, 213, 407, 410 |
| BlsI | GCNGC | 5 cut(s) | 60, 63, 214, 408, 411 |
| Bme1390I | CCNGG | 1 cut(s) | 302 |
| BmrFI | CCNGG | 1 cut(s) | 302 |
| BmsI | GCATC | 3 cut(s) | 20, 88, 416 |
| BpuMI | CCSGG | 1 cut(s) | 302 |
| BsaJI | CCNNGG | 1 cut(s) | 251 |
| BseDI | CCNNGG | 1 cut(s) | 251 |
| BseGI | GGATG | 2 cut(s) | 11, 431 |
| BseRI | GAGGAG | 1 cut(s) | 374 |
| BseX3I | CGGCCG | 1 cut(s) | 59 |
| BseXI | GCAGC | 3 cut(s) | 224, 396, 418 |
| Bsh1285I | CGRYCG | 1 cut(s) | 62 |
| BshFI | GGCC | 1 cut(s) | 61 |
| BsiEI | CGRYCG | 1 cut(s) | 62 |
| BsiSI | CCGG | 1 cut(s) | 301 |
| BsmAI | GTCTC | 1 cut(s) | 45 |
| BsnI | GGCC | 1 cut(s) | 61 |
| Bsp143I | GATC | 2 cut(s) | 205, 351 |
| BspACI | CCGC | 2 cut(s) | 58, 62 |
| BspANI | GGCC | 1 cut(s) | 61 |
| BspPI | GGATC | 1 cut(s) | 346 |
| BssECI | CCNNGG | 1 cut(s) | 251 |
| BssMI | GATC | 2 cut(s) | 205, 351 |
| BssSI | CACGAG | 1 cut(s) | 356 |
| Bst2BI | CACGAG | 1 cut(s) | 356 |
| Bst6I | CTCTTC | 1 cut(s) | 43 |
| BstF5I | GGATG | 2 cut(s) | 11, 431 |
| BstKTI | GATC | 2 cut(s) | 208, 354 |
| BstMAI | GTCTC | 1 cut(s) | 45 |
| BstMBI | GATC | 2 cut(s) | 205, 351 |
| BstMCI | CGRYCG | 1 cut(s) | 62 |
| BstMWI | GCNNNNNNNGC | 1 cut(s) | 29 |
| BstNSI | RCATGY | 2 cut(s) | 68, 374 |
| BstSCI | CCNGG | 1 cut(s) | 300 |
| BstV1I | GCAGC | 3 cut(s) | 224, 396, 418 |
| BstZI | CGGCCG | 1 cut(s) | 59 |
| BsuRI | GGCC | 1 cut(s) | 61 |
| BtgZI | GCGATG | 1 cut(s) | 21 |
| BtsCI | GGATG | 2 cut(s) | 11, 431 |
| CciNI | GCGGCCGC | 1 cut(s) | 59 |
| Csp6I | GTAC | 3 cut(s) | 183, 223, 377 |
| CviAII | CATG | 4 cut(s) | 65, 209, 365, 371 |
| CviJI | RGCY | 9 cut(s) | 32, 61, 140, 215, 250, 256, 332, 345, 409 |
| CviKI_1 | RGCY | 9 cut(s) | 32, 61, 140, 215, 250, 256, 332, 345, 409 |
| CviQI | GTAC | 3 cut(s) | 183, 223, 377 |
| DpnI | GATC | 2 cut(s) | 207, 353 |
| DpnII | GATC | 2 cut(s) | 205, 351 |
| EaeI | YGGCCR | 1 cut(s) | 59 |
| EagI | CGGCCG | 1 cut(s) | 59 |
| Eam1104I | CTCTTC | 1 cut(s) | 43 |
| EarI | CTCTTC | 1 cut(s) | 43 |
| EclXI | CGGCCG | 1 cut(s) | 59 |
| Eco52I | CGGCCG | 1 cut(s) | 59 |
| EcoT22I | ATGCAT | 2 cut(s) | 13, 25 |
| FaeI | CATG | 4 cut(s) | 68, 212, 368, 374 |
| FaiI | YATR | 9 cut(s) | 21, 66, 71, 73, 78, 172, 210, 366, 372 |
| FatI | CATG | 4 cut(s) | 64, 208, 364, 370 |
| FbaI | TGATCA | 1 cut(s) | 205 |
| Fnu4HI | GCNGC | 5 cut(s) | 59, 62, 213, 407, 410 |
| Fsp4HI | GCNGC | 5 cut(s) | 59, 62, 213, 407, 410 |
| FspBI | CTAG | 3 cut(s) | 38, 137, 430 |
| GluI | GCNGC | 5 cut(s) | 59, 62, 213, 407, 410 |
| HaeIII | GGCC | 1 cut(s) | 61 |
| HapII | CCGG | 1 cut(s) | 301 |
| Hin1II | CATG | 4 cut(s) | 68, 212, 368, 374 |
| HinfI | GANTC | 2 cut(s) | 88, 268 |
| HpaII | CCGG | 1 cut(s) | 301 |
| Hpy188I | TCNGA | 3 cut(s) | 16, 87, 205 |
| Hpy188III | TCNNGA | 3 cut(s) | 232, 281, 398 |
| Hpy99I | CGWCG | 1 cut(s) | 124 |
| HpyCH4V | TGCA | 3 cut(s) | 11, 23, 212 |
| HpyF10VI | GCNNNNNNNGC | 1 cut(s) | 29 |
| Hsp92II | CATG | 4 cut(s) | 68, 212, 368, 374 |
| Ksp22I | TGATCA | 1 cut(s) | 205 |
| Kzo9I | GATC | 2 cut(s) | 205, 351 |
| LmnI | GCTCC | 2 cut(s) | 29, 361 |
| LpnPI | CCDG | 2 cut(s) | 314, 399 |
| Lsp1109I | GCAGC | 3 cut(s) | 224, 396, 418 |
| LweI | GCATC | 3 cut(s) | 20, 88, 416 |
| MaeI | CTAG | 3 cut(s) | 38, 137, 430 |
| MalI | GATC | 2 cut(s) | 207, 353 |
| MboI | GATC | 2 cut(s) | 205, 351 |
| MboII | GAAGA | 4 cut(s) | 60, 263, 266, 269 |
| MfeI | CAATTG | 1 cut(s) | 104 |
| MluCI | AATT | 4 cut(s) | 104, 161, 177, 284 |
| MlyI | GAGTC | 1 cut(s) | 82 |
| MmeI | TCCRAC | 2 cut(s) | 39, 245 |
| MnlI | CCTC | 5 cut(s) | 91, 213, 246, 352, 415 |
| Mph1103I | ATGCAT | 2 cut(s) | 13, 25 |
| MroXI | GAANNNNTTC | 1 cut(s) | 393 |
| MseI | TTAA | 2 cut(s) | 176, 341 |
| MslI | CAYNNNNRTG | 1 cut(s) | 369 |
| MspA1I | CMGCKG | 1 cut(s) | 409 |
| MspI | CCGG | 1 cut(s) | 301 |
| MspR9I | CCNGG | 1 cut(s) | 302 |
| MunI | CAATTG | 1 cut(s) | 104 |
| MwoI | GCNNNNNNNGC | 1 cut(s) | 29 |
| NciI | CCSGG | 1 cut(s) | 302 |
| NdeII | GATC | 2 cut(s) | 205, 351 |
| NlaIII | CATG | 4 cut(s) | 68, 212, 368, 374 |
| NmeAIII | GCCGAG | 1 cut(s) | 276 |
| NotI | GCGGCCGC | 1 cut(s) | 59 |
| NsiI | ATGCAT | 2 cut(s) | 13, 25 |
| NspI | RCATGY | 2 cut(s) | 68, 374 |
| PdmI | GAANNNNTTC | 1 cut(s) | 393 |
| PfeI | GAWTC | 1 cut(s) | 268 |
| PfoI | TCCNGGA | 1 cut(s) | 300 |
| PkrI | GCNGC | 5 cut(s) | 60, 63, 214, 408, 411 |
| PleI | GAGTC | 1 cut(s) | 82 |
| PpsI | GAGTC | 1 cut(s) | 82 |
| PsrI | GAACNNNNNNTAC | 2 cut(s) | 360, 392 |
| PvuII | CAGCTG | 1 cut(s) | 409 |
| RsaI | GTAC | 3 cut(s) | 184, 224, 378 |
| RsaNI | GTAC | 3 cut(s) | 183, 223, 377 |
| RseI | CAYNNNNRTG | 1 cut(s) | 369 |
| SaqAI | TTAA | 2 cut(s) | 176, 341 |
| SatI | GCNGC | 5 cut(s) | 59, 62, 213, 407, 410 |
| Sau3AI | GATC | 2 cut(s) | 205, 351 |
| SchI | GAGTC | 1 cut(s) | 82 |
| ScrFI | CCNGG | 1 cut(s) | 302 |
| SetI | ASST | 6 cut(s) | 34, 142, 217, 224, 382, 411 |
| SfaNI | GCATC | 3 cut(s) | 20, 88, 416 |
| SmiMI | CAYNNNNRTG | 1 cut(s) | 369 |
| Sse9I | AATT | 4 cut(s) | 104, 161, 177, 284 |
| SsiI | CCGC | 2 cut(s) | 58, 62 |
| SspMI | CTAG | 3 cut(s) | 38, 137, 430 |
| StyD4I | CCNGG | 1 cut(s) | 300 |
| TasI | AATT | 4 cut(s) | 104, 161, 177, 284 |
| TauI | GCSGC | 2 cut(s) | 61, 64 |
| TfiI | GAWTC | 1 cut(s) | 268 |
| Tru1I | TTAA | 2 cut(s) | 176, 341 |
| Tru9I | TTAA | 2 cut(s) | 176, 341 |
| TseI | GCWGC | 3 cut(s) | 212, 406, 409 |
| TspDTI | ATGAA | 2 cut(s) | 159, 381 |
| TspGWI | ACGGA | 3 cut(s) | 137, 155, 251 |
| XapI | RAATTY | 2 cut(s) | 161, 284 |
| XceI | RCATGY | 2 cut(s) | 68, 374 |
| XmnI | GAANNNNTTC | 1 cut(s) | 393 |
| XspI | CTAG | 3 cut(s) | 38, 137, 430 |
| Zsp2I | ATGCAT | 2 cut(s) | 13, 25 |