Integrase core domain
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AarI | CACCTGC | 1 cut(s) | 574 |
| Acc36I | ACCTGC | 1 cut(s) | 574 |
| AccB1I | GGYRCC | 1 cut(s) | 241 |
| AccII | CGCG | 1 cut(s) | 18 |
| AciI | CCGC | 5 cut(s) | 16, 18, 339, 381, 608 |
| AclI | AACGTT | 1 cut(s) | 375 |
| AclWI | GGATC | 2 cut(s) | 98, 413 |
| AcsI | RAATTY | 2 cut(s) | 41, 625 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 352 |
| AflIII | ACRYGT | 1 cut(s) | 631 |
| AgsI | TTSAA | 7 cut(s) | 9, 52, 309, 495, 528, 547, 673 |
| AjnI | CCWGG | 1 cut(s) | 421 |
| AleI | CACNNNNGTG | 1 cut(s) | 409 |
| AluBI | AGCT | 4 cut(s) | 60, 429, 491, 695 |
| AluI | AGCT | 4 cut(s) | 60, 429, 491, 695 |
| Alw26I | GTCTC | 1 cut(s) | 702 |
| AlwI | GGATC | 2 cut(s) | 98, 413 |
| Ama87I | CYCGRG | 1 cut(s) | 245 |
| ApeKI | GCWGC | 1 cut(s) | 21 |
| ApoI | RAATTY | 2 cut(s) | 41, 625 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 26, 58 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 296 |
| AspS9I | GGNCC | 1 cut(s) | 249 |
| AsuC2I | CCSGG | 3 cut(s) | 246, 247, 605 |
| AsuHPI | GGTGA | 2 cut(s) | 551, 598 |
| AsuII | TTCGAA | 1 cut(s) | 465 |
| AvaI | CYCGRG | 1 cut(s) | 245 |
| AvaII | GGWCC | 1 cut(s) | 249 |
| BanI | GGYRCC | 1 cut(s) | 241 |
| BbvI | GCAGC | 1 cut(s) | 8 |
| BccI | CCATC | 2 cut(s) | 161, 548 |
| BciT130I | CCWGG | 1 cut(s) | 423 |
| BcnI | CCSGG | 3 cut(s) | 246, 247, 605 |
| BcoDI | GTCTC | 1 cut(s) | 702 |
| BfuAI | ACCTGC | 1 cut(s) | 574 |
| BisI | GCNGC | 2 cut(s) | 19, 22 |
| BlsI | GCNGC | 2 cut(s) | 20, 23 |
| Bme1390I | CCNGG | 4 cut(s) | 246, 247, 423, 605 |
| Bme18I | GGWCC | 1 cut(s) | 249 |
| BmeT110I | CYCGRG | 1 cut(s) | 245 |
| BmgT120I | GGNCC | 1 cut(s) | 249 |
| BmiI | GGNNCC | 2 cut(s) | 243, 250 |
| BmrFI | CCNGG | 4 cut(s) | 246, 247, 423, 605 |
| BmsI | GCATC | 1 cut(s) | 124 |
| BplI | GAGNNNNNCTC | 2 cut(s) | 303, 335 |
| Bpu10I | CCTNAGC | 1 cut(s) | 219 |
| Bpu14I | TTCGAA | 1 cut(s) | 465 |
| BpuEI | CTTGAG | 2 cut(s) | 104, 343 |
| BpuMI | CCSGG | 3 cut(s) | 246, 247, 605 |
| BsaBI | GATNNNNATC | 1 cut(s) | 615 |
| BsaJI | CCNNGG | 6 cut(s) | 16, 26, 85, 96, 245, 535 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 352 |
| Bse8I | GATNNNNATC | 1 cut(s) | 615 |
| BseBI | CCWGG | 1 cut(s) | 423 |
| BseDI | CCNNGG | 6 cut(s) | 16, 26, 85, 96, 245, 535 |
| BseGI | GGATG | 1 cut(s) | 698 |
| BseJI | GATNNNNATC | 1 cut(s) | 615 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 352 |
| BseXI | GCAGC | 1 cut(s) | 8 |
| BsgI | GTGCAG | 1 cut(s) | 602 |
| Bsh1236I | CGCG | 1 cut(s) | 18 |
| BshNI | GGYRCC | 1 cut(s) | 241 |
| BsiHKCI | CYCGRG | 1 cut(s) | 245 |
| BsiSI | CCGG | 2 cut(s) | 246, 605 |
| BslFI | GGGAC | 1 cut(s) | 262 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 352 |
| BsmAI | GTCTC | 1 cut(s) | 702 |
| BsmFI | GGGAC | 1 cut(s) | 262 |
| BsmI | GAATGC | 1 cut(s) | 4 |
| BsoBI | CYCGRG | 1 cut(s) | 245 |
| Bsp119I | TTCGAA | 1 cut(s) | 465 |
| Bsp143I | GATC | 3 cut(s) | 103, 418, 597 |
| Bsp19I | CCATGG | 2 cut(s) | 85, 96 |
| BspACI | CCGC | 5 cut(s) | 16, 18, 339, 381, 608 |
| BspFNI | CGCG | 1 cut(s) | 18 |
| BspLI | GGNNCC | 2 cut(s) | 243, 250 |
| BspMI | ACCTGC | 1 cut(s) | 574 |
| BspPI | GGATC | 2 cut(s) | 98, 413 |
| BspT104I | TTCGAA | 1 cut(s) | 465 |
| BspT107I | GGYRCC | 1 cut(s) | 241 |
| BssECI | CCNNGG | 6 cut(s) | 16, 26, 85, 96, 245, 535 |
| BssMI | GATC | 3 cut(s) | 103, 418, 597 |
| BssT1I | CCWWGG | 4 cut(s) | 26, 85, 96, 535 |
| Bst2UI | CCWGG | 1 cut(s) | 423 |
| Bst4CI | ACNGT | 1 cut(s) | 253 |
| Bst6I | CTCTTC | 1 cut(s) | 269 |
| BstBI | TTCGAA | 1 cut(s) | 465 |
| BstDEI | CTNAG | 4 cut(s) | 219, 459, 484, 577 |
| BstDSI | CCRYGG | 3 cut(s) | 16, 85, 96 |
| BstF5I | GGATG | 1 cut(s) | 698 |
| BstFNI | CGCG | 1 cut(s) | 18 |
| BstKTI | GATC | 3 cut(s) | 106, 421, 600 |
| BstMAI | GTCTC | 1 cut(s) | 702 |
| BstMBI | GATC | 3 cut(s) | 103, 418, 597 |
| BstNI | CCWGG | 1 cut(s) | 423 |
| BstNSI | RCATGY | 3 cut(s) | 473, 635, 669 |
| BstSCI | CCNGG | 4 cut(s) | 244, 245, 421, 603 |
| BstUI | CGCG | 1 cut(s) | 18 |
| BstV1I | GCAGC | 1 cut(s) | 8 |
| BstX2I | RGATCY | 2 cut(s) | 103, 418 |
| BstYI | RGATCY | 2 cut(s) | 103, 418 |
| BtgI | CCRYGG | 3 cut(s) | 16, 85, 96 |
| BtsCI | GGATG | 1 cut(s) | 698 |
| BveI | ACCTGC | 1 cut(s) | 574 |
| Cfr13I | GGNCC | 1 cut(s) | 249 |
| Cfr42I | CCGCGG | 1 cut(s) | 19 |
| Cfr9I | CCCGGG | 1 cut(s) | 245 |
| CviAII | CATG | 8 cut(s) | 86, 97, 148, 271, 470, 505, 632, 666 |
| CviJI | RGCY | 9 cut(s) | 21, 60, 91, 218, 229, 429, 491, 695, 717 |
| CviKI_1 | RGCY | 9 cut(s) | 21, 60, 91, 218, 229, 429, 491, 695, 717 |
| DdeI | CTNAG | 4 cut(s) | 219, 459, 484, 577 |
| DpnI | GATC | 3 cut(s) | 105, 420, 599 |
| DpnII | GATC | 3 cut(s) | 103, 418, 597 |
| Eam1104I | CTCTTC | 1 cut(s) | 269 |
| EarI | CTCTTC | 1 cut(s) | 269 |
| EciI | GGCGGA | 1 cut(s) | 623 |
| Eco130I | CCWWGG | 4 cut(s) | 26, 85, 96, 535 |
| Eco47I | GGWCC | 1 cut(s) | 249 |
| Eco88I | CYCGRG | 1 cut(s) | 245 |
| EcoRI | GAATTC | 2 cut(s) | 41, 625 |
| EcoRII | CCWGG | 1 cut(s) | 421 |
| EcoT14I | CCWWGG | 4 cut(s) | 26, 85, 96, 535 |
| EcoT22I | ATGCAT | 1 cut(s) | 6 |
| ErhI | CCWWGG | 4 cut(s) | 26, 85, 96, 535 |
| FaeI | CATG | 8 cut(s) | 89, 100, 151, 274, 473, 508, 635, 669 |
| FalI | AAGNNNNNCTT | 2 cut(s) | 44, 76 |
| FaqI | GGGAC | 1 cut(s) | 262 |
| FatI | CATG | 8 cut(s) | 85, 96, 147, 270, 469, 504, 631, 665 |
| FauI | CCCGC | 1 cut(s) | 23 |
| Fnu4HI | GCNGC | 2 cut(s) | 19, 22 |
| FokI | GGATG | 1 cut(s) | 685 |
| Fsp4HI | GCNGC | 2 cut(s) | 19, 22 |
| GluI | GCNGC | 2 cut(s) | 19, 22 |
| HapII | CCGG | 2 cut(s) | 246, 605 |
| Hin1II | CATG | 8 cut(s) | 89, 100, 151, 274, 473, 508, 635, 669 |
| HindIII | AAGCTT | 1 cut(s) | 58 |
| HinfI | GANTC | 2 cut(s) | 312, 342 |
| HpaII | CCGG | 2 cut(s) | 246, 605 |
| HphI | GGTGA | 2 cut(s) | 551, 598 |
| Hpy188I | TCNGA | 1 cut(s) | 78 |
| Hpy188III | TCNNGA | 2 cut(s) | 309, 322 |
| HpyAV | CCTTC | 1 cut(s) | 667 |
| HpyCH4III | ACNGT | 1 cut(s) | 253 |
| HpyCH4IV | ACGT | 2 cut(s) | 375, 501 |
| HpyCH4V | TGCA | 4 cut(s) | 4, 67, 414, 583 |
| HpyF3I | CTNAG | 4 cut(s) | 219, 459, 484, 577 |
| HpySE526I | ACGT | 2 cut(s) | 375, 501 |
| Hsp92II | CATG | 8 cut(s) | 89, 100, 151, 274, 473, 508, 635, 669 |
| KspI | CCGCGG | 1 cut(s) | 19 |
| Kzo9I | GATC | 3 cut(s) | 103, 418, 597 |
| LmnI | GCTCC | 1 cut(s) | 488 |
| LpnPI | CCDG | 5 cut(s) | 259, 408, 435, 569, 618 |
| Lsp1109I | GCAGC | 1 cut(s) | 8 |
| LweI | GCATC | 1 cut(s) | 124 |
| MaeII | ACGT | 2 cut(s) | 375, 501 |
| MaeIII | GTNAC | 3 cut(s) | 253, 399, 661 |
| MalI | GATC | 3 cut(s) | 105, 420, 599 |
| MboI | GATC | 3 cut(s) | 103, 418, 597 |
| MboII | GAAGA | 7 cut(s) | 113, 286, 289, 340, 581, 592, 689 |
| MflI | RGATCY | 2 cut(s) | 103, 418 |
| MluCI | AATT | 8 cut(s) | 41, 236, 333, 495, 542, 592, 625, 636 |
| MlyI | GAGTC | 1 cut(s) | 321 |
| MmeI | TCCRAC | 1 cut(s) | 370 |
| MnlI | CCTC | 2 cut(s) | 124, 318 |
| Mph1103I | ATGCAT | 1 cut(s) | 6 |
| MroXI | GAANNNNTTC | 1 cut(s) | 296 |
| MseI | TTAA | 1 cut(s) | 498 |
| MslI | CAYNNNNRTG | 2 cut(s) | 179, 409 |
| MspA1I | CMGCKG | 2 cut(s) | 18, 383 |
| MspI | CCGG | 2 cut(s) | 246, 605 |
| MspR9I | CCNGG | 4 cut(s) | 246, 247, 423, 605 |
| Mva1269I | GAATGC | 1 cut(s) | 4 |
| MvaI | CCWGG | 1 cut(s) | 423 |
| MvnI | CGCG | 1 cut(s) | 18 |
| NciI | CCSGG | 3 cut(s) | 246, 247, 605 |
| NcoI | CCATGG | 2 cut(s) | 85, 96 |
| NdeII | GATC | 3 cut(s) | 103, 418, 597 |
| NlaIII | CATG | 8 cut(s) | 89, 100, 151, 274, 473, 508, 635, 669 |
| NlaIV | GGNNCC | 2 cut(s) | 243, 250 |
| NsiI | ATGCAT | 1 cut(s) | 6 |
| NspI | RCATGY | 3 cut(s) | 473, 635, 669 |
| NspV | TTCGAA | 1 cut(s) | 465 |
| OliI | CACNNNNGTG | 1 cut(s) | 409 |
| PaqCI | CACCTGC | 1 cut(s) | 574 |
| PciI | ACATGT | 1 cut(s) | 631 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 42 |
| PctI | GAATGC | 1 cut(s) | 4 |
| PdmI | GAANNNNTTC | 1 cut(s) | 296 |
| PfeI | GAWTC | 1 cut(s) | 342 |
| PkrI | GCNGC | 2 cut(s) | 20, 23 |
| PleI | GAGTC | 1 cut(s) | 320 |
| PpsI | GAGTC | 1 cut(s) | 320 |
| PscI | ACATGT | 1 cut(s) | 631 |
| Psp1406I | AACGTT | 1 cut(s) | 375 |
| Psp6I | CCWGG | 1 cut(s) | 421 |
| PspGI | CCWGG | 1 cut(s) | 421 |
| PspN4I | GGNNCC | 2 cut(s) | 243, 250 |
| PspPI | GGNCC | 1 cut(s) | 249 |
| PsuI | RGATCY | 2 cut(s) | 103, 418 |
| RseI | CAYNNNNRTG | 2 cut(s) | 179, 409 |
| SacII | CCGCGG | 1 cut(s) | 19 |
| SaqAI | TTAA | 1 cut(s) | 498 |
| SatI | GCNGC | 2 cut(s) | 19, 22 |
| Sau3AI | GATC | 3 cut(s) | 103, 418, 597 |
| Sau96I | GGNCC | 1 cut(s) | 249 |
| SchI | GAGTC | 1 cut(s) | 321 |
| ScrFI | CCNGG | 4 cut(s) | 246, 247, 423, 605 |
| SfaNI | GCATC | 1 cut(s) | 124 |
| Sfr303I | CCGCGG | 1 cut(s) | 19 |
| SfuI | TTCGAA | 1 cut(s) | 465 |
| SgrBI | CCGCGG | 1 cut(s) | 19 |
| SinI | GGWCC | 1 cut(s) | 249 |
| SmaI | CCCGGG | 1 cut(s) | 247 |
| SmiMI | CAYNNNNRTG | 2 cut(s) | 179, 409 |
| SmlI | CTYRAG | 4 cut(s) | 119, 322, 703, 712 |
| SmoI | CTYRAG | 4 cut(s) | 119, 322, 703, 712 |
| Sse9I | AATT | 8 cut(s) | 41, 236, 333, 495, 542, 592, 625, 636 |
| SsiI | CCGC | 5 cut(s) | 16, 18, 339, 381, 608 |
| StyD4I | CCNGG | 4 cut(s) | 244, 245, 421, 603 |
| StyI | CCWWGG | 4 cut(s) | 26, 85, 96, 535 |
| TaaI | ACNGT | 1 cut(s) | 253 |
| TaiI | ACGT | 2 cut(s) | 378, 504 |
| TaqI | TCGA | 4 cut(s) | 45, 143, 165, 465 |
| TasI | AATT | 8 cut(s) | 41, 236, 333, 495, 542, 592, 625, 636 |
| TauI | GCSGC | 1 cut(s) | 21 |
| TfiI | GAWTC | 1 cut(s) | 342 |
| Tru1I | TTAA | 1 cut(s) | 498 |
| Tru9I | TTAA | 1 cut(s) | 498 |
| TseI | GCWGC | 1 cut(s) | 21 |
| TspDTI | ATGAA | 6 cut(s) | 54, 200, 249, 287, 545, 638 |
| TspMI | CCCGGG | 1 cut(s) | 245 |
| VpaK11BI | GGWCC | 1 cut(s) | 249 |
| XapI | RAATTY | 2 cut(s) | 41, 625 |
| XceI | RCATGY | 3 cut(s) | 473, 635, 669 |
| XmaI | CCCGGG | 1 cut(s) | 245 |
| XmnI | GAANNNNTTC | 1 cut(s) | 296 |
| Zsp2I | ATGCAT | 1 cut(s) | 6 |