Integrase core domain
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| Acc65I | GGTACC | 2 cut(s) | 450, 492 |
| AccB1I | GGYRCC | 2 cut(s) | 450, 492 |
| AccB7I | CCANNNNNTGG | 1 cut(s) | 465 |
| AciI | CCGC | 3 cut(s) | 58, 62, 396 |
| AclWI | GGATC | 1 cut(s) | 346 |
| AcoI | YGGCCR | 1 cut(s) | 59 |
| AcsI | RAATTY | 2 cut(s) | 161, 284 |
| AfaI | GTAC | 4 cut(s) | 184, 224, 452, 494 |
| AfeI | AGCGCT | 1 cut(s) | 524 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 465 |
| AgsI | TTSAA | 3 cut(s) | 109, 281, 296 |
| AluBI | AGCT | 4 cut(s) | 32, 140, 215, 481 |
| AluI | AGCT | 4 cut(s) | 32, 140, 215, 481 |
| Alw26I | GTCTC | 2 cut(s) | 45, 576 |
| AlwI | GGATC | 1 cut(s) | 346 |
| Aor51HI | AGCGCT | 1 cut(s) | 524 |
| AoxI | GGCC | 1 cut(s) | 59 |
| ApeKI | GCWGC | 2 cut(s) | 212, 503 |
| ApoI | RAATTY | 2 cut(s) | 161, 284 |
| Asp718I | GGTACC | 2 cut(s) | 450, 492 |
| AspLEI | GCGC | 1 cut(s) | 525 |
| AsuC2I | CCSGG | 1 cut(s) | 302 |
| BaeI | ACNNNNGTAYC | 4 cut(s) | 174, 207, 476, 509 |
| BanI | GGYRCC | 2 cut(s) | 450, 492 |
| BauI | CACGAG | 1 cut(s) | 356 |
| BbvI | GCAGC | 2 cut(s) | 224, 490 |
| BceAI | ACGGC | 1 cut(s) | 448 |
| BclI | TGATCA | 1 cut(s) | 205 |
| BcnI | CCSGG | 1 cut(s) | 302 |
| BcoDI | GTCTC | 2 cut(s) | 45, 576 |
| BfaI | CTAG | 3 cut(s) | 38, 137, 473 |
| BfoI | RGCGCY | 1 cut(s) | 526 |
| BisI | GCNGC | 5 cut(s) | 59, 62, 213, 396, 504 |
| BlsI | GCNGC | 5 cut(s) | 60, 63, 214, 397, 505 |
| Bme1390I | CCNGG | 1 cut(s) | 302 |
| BmiI | GGNNCC | 3 cut(s) | 452, 470, 494 |
| BmrFI | CCNGG | 1 cut(s) | 302 |
| BmsI | GCATC | 3 cut(s) | 20, 88, 555 |
| BpuMI | CCSGG | 1 cut(s) | 302 |
| BsaJI | CCNNGG | 2 cut(s) | 251, 464 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 481, 511 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 465 |
| BseDI | CCNNGG | 2 cut(s) | 251, 464 |
| BseGI | GGATG | 2 cut(s) | 11, 546 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 465 |
| BseRI | GAGGAG | 2 cut(s) | 374, 460 |
| BseX3I | CGGCCG | 1 cut(s) | 59 |
| BseXI | GCAGC | 2 cut(s) | 224, 490 |
| Bsh1285I | CGRYCG | 1 cut(s) | 62 |
| BshFI | GGCC | 1 cut(s) | 61 |
| BshNI | GGYRCC | 2 cut(s) | 450, 492 |
| BsiEI | CGRYCG | 1 cut(s) | 62 |
| BsiSI | CCGG | 2 cut(s) | 301, 500 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 465 |
| BsmAI | GTCTC | 2 cut(s) | 45, 576 |
| BsnI | GGCC | 1 cut(s) | 61 |
| Bsp143I | GATC | 2 cut(s) | 205, 351 |
| BspACI | CCGC | 3 cut(s) | 58, 62, 396 |
| BspANI | GGCC | 1 cut(s) | 61 |
| BspLI | GGNNCC | 3 cut(s) | 452, 470, 494 |
| BspPI | GGATC | 1 cut(s) | 346 |
| BspT107I | GGYRCC | 2 cut(s) | 450, 492 |
| BssECI | CCNNGG | 2 cut(s) | 251, 464 |
| BssMI | GATC | 2 cut(s) | 205, 351 |
| BssSI | CACGAG | 1 cut(s) | 356 |
| Bst2BI | CACGAG | 1 cut(s) | 356 |
| Bst4CI | ACNGT | 2 cut(s) | 418, 497 |
| Bst6I | CTCTTC | 1 cut(s) | 43 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 543 |
| BstC8I | GCNNGC | 1 cut(s) | 655 |
| BstDSI | CCRYGG | 1 cut(s) | 464 |
| BstF5I | GGATG | 2 cut(s) | 11, 546 |
| BstH2I | RGCGCY | 1 cut(s) | 526 |
| BstHHI | GCGC | 1 cut(s) | 525 |
| BstKTI | GATC | 2 cut(s) | 208, 354 |
| BstMAI | GTCTC | 2 cut(s) | 45, 576 |
| BstMBI | GATC | 2 cut(s) | 205, 351 |
| BstMCI | CGRYCG | 1 cut(s) | 62 |
| BstMWI | GCNNNNNNNGC | 3 cut(s) | 29, 432, 543 |
| BstNSI | RCATGY | 3 cut(s) | 68, 374, 439 |
| BstSCI | CCNGG | 1 cut(s) | 300 |
| BstV1I | GCAGC | 2 cut(s) | 224, 490 |
| BstZI | CGGCCG | 1 cut(s) | 59 |
| BsuRI | GGCC | 1 cut(s) | 61 |
| BtgI | CCRYGG | 1 cut(s) | 464 |
| BtgZI | GCGATG | 1 cut(s) | 21 |
| BtsCI | GGATG | 2 cut(s) | 11, 546 |
| Cac8I | GCNNGC | 1 cut(s) | 655 |
| CciNI | GCGGCCGC | 1 cut(s) | 59 |
| CfoI | GCGC | 1 cut(s) | 525 |
| Csp6I | GTAC | 4 cut(s) | 183, 223, 451, 493 |
| CviAII | CATG | 7 cut(s) | 65, 209, 365, 371, 436, 460, 543 |
| CviQI | GTAC | 4 cut(s) | 183, 223, 451, 493 |
| 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 |
| Eco47III | AGCGCT | 1 cut(s) | 524 |
| Eco52I | CGGCCG | 1 cut(s) | 59 |
| EcoT22I | ATGCAT | 3 cut(s) | 13, 25, 548 |
| FaeI | CATG | 7 cut(s) | 68, 212, 368, 374, 439, 463, 546 |
| FatI | CATG | 7 cut(s) | 64, 208, 364, 370, 435, 459, 542 |
| FbaI | TGATCA | 1 cut(s) | 205 |
| Fnu4HI | GCNGC | 5 cut(s) | 59, 62, 213, 396, 504 |
| FokI | GGATG | 1 cut(s) | 533 |
| Fsp4HI | GCNGC | 5 cut(s) | 59, 62, 213, 396, 504 |
| FspBI | CTAG | 3 cut(s) | 38, 137, 473 |
| GlaI | GCGC | 1 cut(s) | 524 |
| GluI | GCNGC | 5 cut(s) | 59, 62, 213, 396, 504 |
| HaeII | RGCGCY | 1 cut(s) | 526 |
| HaeIII | GGCC | 1 cut(s) | 61 |
| HapII | CCGG | 2 cut(s) | 301, 500 |
| HhaI | GCGC | 1 cut(s) | 525 |
| Hin1II | CATG | 7 cut(s) | 68, 212, 368, 374, 439, 463, 546 |
| Hin6I | GCGC | 1 cut(s) | 523 |
| HinP1I | GCGC | 1 cut(s) | 523 |
| HindIII | AAGCTT | 1 cut(s) | 479 |
| HinfI | GANTC | 2 cut(s) | 88, 268 |
| HpaII | CCGG | 2 cut(s) | 301, 500 |
| Hpy188I | TCNGA | 4 cut(s) | 16, 87, 205, 551 |
| Hpy188III | TCNNGA | 2 cut(s) | 232, 281 |
| Hpy99I | CGWCG | 1 cut(s) | 124 |
| HpyCH4III | ACNGT | 2 cut(s) | 418, 497 |
| HpyCH4IV | ACGT | 1 cut(s) | 511 |
| HpyCH4V | TGCA | 6 cut(s) | 11, 23, 212, 435, 506, 546 |
| HpyF10VI | GCNNNNNNNGC | 3 cut(s) | 29, 432, 543 |
| HpySE526I | ACGT | 1 cut(s) | 511 |
| Hsp92II | CATG | 7 cut(s) | 68, 212, 368, 374, 439, 463, 546 |
| HspAI | GCGC | 1 cut(s) | 523 |
| KpnI | GGTACC | 2 cut(s) | 454, 496 |
| 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, 513 |
| Lsp1109I | GCAGC | 2 cut(s) | 224, 490 |
| LweI | GCATC | 3 cut(s) | 20, 88, 555 |
| MaeI | CTAG | 3 cut(s) | 38, 137, 473 |
| MaeII | ACGT | 1 cut(s) | 511 |
| MaeIII | GTNAC | 1 cut(s) | 664 |
| MalI | GATC | 2 cut(s) | 207, 353 |
| MboI | GATC | 2 cut(s) | 205, 351 |
| MboII | GAAGA | 5 cut(s) | 60, 263, 266, 269, 571 |
| MfeI | CAATTG | 1 cut(s) | 104 |
| MluCI | AATT | 5 cut(s) | 104, 161, 177, 284, 407 |
| MlyI | GAGTC | 1 cut(s) | 82 |
| MmeI | TCCRAC | 2 cut(s) | 39, 245 |
| MnlI | CCTC | 9 cut(s) | 91, 213, 246, 352, 438, 441, 466, 483, 527 |
| Mph1103I | ATGCAT | 3 cut(s) | 13, 25, 548 |
| MseI | TTAA | 6 cut(s) | 176, 341, 428, 483, 578, 677 |
| MslI | CAYNNNNRTG | 1 cut(s) | 369 |
| MspI | CCGG | 2 cut(s) | 301, 500 |
| MspR9I | CCNGG | 1 cut(s) | 302 |
| MunI | CAATTG | 1 cut(s) | 104 |
| MwoI | GCNNNNNNNGC | 3 cut(s) | 29, 432, 543 |
| NciI | CCSGG | 1 cut(s) | 302 |
| NdeII | GATC | 2 cut(s) | 205, 351 |
| NlaIII | CATG | 7 cut(s) | 68, 212, 368, 374, 439, 463, 546 |
| NlaIV | GGNNCC | 3 cut(s) | 452, 470, 494 |
| NmeAIII | GCCGAG | 1 cut(s) | 276 |
| NmuCI | GTSAC | 1 cut(s) | 664 |
| NotI | GCGGCCGC | 1 cut(s) | 59 |
| NsiI | ATGCAT | 3 cut(s) | 13, 25, 548 |
| NspI | RCATGY | 3 cut(s) | 68, 374, 439 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 493 |
| PfeI | GAWTC | 1 cut(s) | 268 |
| PflMI | CCANNNNNTGG | 1 cut(s) | 465 |
| PfoI | TCCNGGA | 1 cut(s) | 300 |
| PkrI | GCNGC | 5 cut(s) | 60, 63, 214, 397, 505 |
| PleI | GAGTC | 1 cut(s) | 82 |
| PpsI | GAGTC | 1 cut(s) | 82 |
| PspN4I | GGNNCC | 3 cut(s) | 452, 470, 494 |
| RsaI | GTAC | 4 cut(s) | 184, 224, 452, 494 |
| RsaNI | GTAC | 4 cut(s) | 183, 223, 451, 493 |
| RseI | CAYNNNNRTG | 1 cut(s) | 369 |
| SaqAI | TTAA | 6 cut(s) | 176, 341, 428, 483, 578, 677 |
| SatI | GCNGC | 5 cut(s) | 59, 62, 213, 396, 504 |
| Sau3AI | GATC | 2 cut(s) | 205, 351 |
| SchI | GAGTC | 1 cut(s) | 82 |
| ScrFI | CCNGG | 1 cut(s) | 302 |
| SetI | ASST | 9 cut(s) | 34, 142, 217, 224, 452, 474, 483, 494, 514 |
| SfaNI | GCATC | 3 cut(s) | 20, 88, 555 |
| SmiMI | CAYNNNNRTG | 1 cut(s) | 369 |
| Sse9I | AATT | 5 cut(s) | 104, 161, 177, 284, 407 |
| SsiI | CCGC | 3 cut(s) | 58, 62, 396 |
| SspMI | CTAG | 3 cut(s) | 38, 137, 473 |
| StyD4I | CCNGG | 1 cut(s) | 300 |
| TaaI | ACNGT | 2 cut(s) | 418, 497 |
| TaiI | ACGT | 1 cut(s) | 514 |
| TasI | AATT | 5 cut(s) | 104, 161, 177, 284, 407 |
| TauI | GCSGC | 3 cut(s) | 61, 64, 398 |
| TfiI | GAWTC | 1 cut(s) | 268 |
| Tru1I | TTAA | 6 cut(s) | 176, 341, 428, 483, 578, 677 |
| Tru9I | TTAA | 6 cut(s) | 176, 341, 428, 483, 578, 677 |
| TseFI | GTSAC | 1 cut(s) | 664 |
| TseI | GCWGC | 2 cut(s) | 212, 503 |
| Tsp45I | GTSAC | 1 cut(s) | 664 |
| TspDTI | ATGAA | 2 cut(s) | 159, 381 |
| TspGWI | ACGGA | 4 cut(s) | 137, 155, 251, 502 |
| Van91I | CCANNNNNTGG | 1 cut(s) | 465 |
| XapI | RAATTY | 2 cut(s) | 161, 284 |
| XceI | RCATGY | 3 cut(s) | 68, 374, 439 |
| XspI | CTAG | 3 cut(s) | 38, 137, 473 |
| Zsp2I | ATGCAT | 3 cut(s) | 13, 25, 548 |