Ribonuclease H protein
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| RRM_1 | PF00076 | 101 - 164 | 2.5e-14 | RNA recognition motif |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AasI | GACNNNNNNGTC | 1 cut(s) | 74 |
| AccB1I | GGYRCC | 2 cut(s) | 71, 140 |
| AccI | GTMKAC | 1 cut(s) | 78 |
| AccII | CGCG | 1 cut(s) | 195 |
| AciI | CCGC | 3 cut(s) | 150, 223, 452 |
| AclWI | GGATC | 3 cut(s) | 194, 531, 544 |
| AcsI | RAATTY | 3 cut(s) | 362, 379, 445 |
| AcuI | CTGAAG | 1 cut(s) | 511 |
| AcyI | GRCGYC | 2 cut(s) | 81, 141 |
| AfaI | GTAC | 2 cut(s) | 406, 495 |
| AfiI | CCNNNNNNNGG | 2 cut(s) | 102, 325 |
| AhdI | GACNNNNNGTC | 1 cut(s) | 180 |
| AjiI | CACGTC | 1 cut(s) | 19 |
| AluBI | AGCT | 3 cut(s) | 121, 164, 464 |
| AluI | AGCT | 3 cut(s) | 121, 164, 464 |
| Alw26I | GTCTC | 1 cut(s) | 238 |
| AlwI | GGATC | 3 cut(s) | 194, 531, 544 |
| Ama87I | CYCGRG | 3 cut(s) | 41, 102, 269 |
| AoxI | GGCC | 3 cut(s) | 105, 265, 522 |
| ApaI | GGGCCC | 1 cut(s) | 109 |
| ApeKI | GCWGC | 1 cut(s) | 464 |
| ApoI | RAATTY | 3 cut(s) | 362, 379, 445 |
| AspA2I | CCTAGG | 1 cut(s) | 605 |
| AspLEI | GCGC | 3 cut(s) | 143, 430, 460 |
| AspS9I | GGNCC | 3 cut(s) | 105, 106, 522 |
| AsuC2I | CCSGG | 2 cut(s) | 103, 104 |
| AsuHPI | GGTGA | 2 cut(s) | 127, 371 |
| AvaI | CYCGRG | 3 cut(s) | 41, 102, 269 |
| AvrII | CCTAGG | 1 cut(s) | 605 |
| BaeGI | GKGCMC | 1 cut(s) | 109 |
| BamHI | GGATCC | 1 cut(s) | 536 |
| BanI | GGYRCC | 2 cut(s) | 71, 140 |
| BanII | GRGCYC | 4 cut(s) | 42, 90, 109, 276 |
| BbsI | GAAGAC | 1 cut(s) | 179 |
| BbvCI | CCTCAGC | 1 cut(s) | 91 |
| BbvI | GCAGC | 1 cut(s) | 451 |
| BccI | CCATC | 2 cut(s) | 288, 542 |
| BceAI | ACGGC | 4 cut(s) | 11, 59, 280, 387 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 53, 87 |
| BcnI | CCSGG | 2 cut(s) | 103, 104 |
| BcoDI | GTCTC | 1 cut(s) | 238 |
| BfaI | CTAG | 2 cut(s) | 260, 606 |
| BfoI | RGCGCY | 1 cut(s) | 144 |
| BisI | GCNGC | 1 cut(s) | 465 |
| BlnI | CCTAGG | 1 cut(s) | 605 |
| BlsI | GCNGC | 1 cut(s) | 466 |
| Bme1390I | CCNGG | 2 cut(s) | 103, 104 |
| BmeRI | GACNNNNNGTC | 1 cut(s) | 180 |
| BmeT110I | CYCGRG | 3 cut(s) | 41, 102, 269 |
| BmgBI | CACGTC | 1 cut(s) | 19 |
| BmgT120I | GGNCC | 3 cut(s) | 105, 106, 522 |
| BmiI | GGNNCC | 5 cut(s) | 73, 107, 108, 142, 538 |
| BmrFI | CCNGG | 2 cut(s) | 103, 104 |
| BmrI | ACTGGG | 2 cut(s) | 417, 529 |
| BmuI | ACTGGG | 2 cut(s) | 417, 529 |
| BpiI | GAAGAC | 1 cut(s) | 179 |
| Bpu10I | CCTNAGC | 1 cut(s) | 91 |
| BpuEI | CTTGAG | 2 cut(s) | 107, 577 |
| BpuMI | CCSGG | 2 cut(s) | 103, 104 |
| Bsa29I | ATCGAT | 1 cut(s) | 284 |
| BsaHI | GRCGYC | 2 cut(s) | 81, 141 |
| BsaJI | CCNNGG | 5 cut(s) | 27, 42, 101, 102, 605 |
| BsaWI | WCCGGW | 1 cut(s) | 311 |
| Bsc4I | CCNNNNNNNGG | 2 cut(s) | 102, 325 |
| Bse118I | RCCGGY | 1 cut(s) | 137 |
| Bse1I | ACTGG | 2 cut(s) | 412, 524 |
| Bse3DI | GCAATG | 1 cut(s) | 538 |
| BseCI | ATCGAT | 1 cut(s) | 284 |
| BseDI | CCNNGG | 5 cut(s) | 27, 42, 101, 102, 605 |
| BseGI | GGATG | 1 cut(s) | 299 |
| BseLI | CCNNNNNNNGG | 2 cut(s) | 102, 325 |
| BseMI | GCAATG | 1 cut(s) | 538 |
| BseMII | CTCAG | 2 cut(s) | 105, 174 |
| BseNI | ACTGG | 2 cut(s) | 412, 524 |
| BseRI | GAGGAG | 1 cut(s) | 136 |
| BseSI | GKGCMC | 1 cut(s) | 109 |
| BseXI | GCAGC | 1 cut(s) | 451 |
| BseYI | CCCAGC | 1 cut(s) | 276 |
| Bsh1236I | CGCG | 1 cut(s) | 195 |
| Bsh1285I | CGRYCG | 2 cut(s) | 284, 288 |
| BshFI | GGCC | 3 cut(s) | 107, 267, 524 |
| BshNI | GGYRCC | 2 cut(s) | 71, 140 |
| BshVI | ATCGAT | 1 cut(s) | 284 |
| BsiEI | CGRYCG | 2 cut(s) | 284, 288 |
| BsiHKCI | CYCGRG | 3 cut(s) | 41, 102, 269 |
| BsiSI | CCGG | 3 cut(s) | 103, 138, 312 |
| BslI | CCNNNNNNNGG | 2 cut(s) | 102, 325 |
| BsmAI | GTCTC | 1 cut(s) | 238 |
| BsnI | GGCC | 3 cut(s) | 107, 267, 524 |
| BsoBI | CYCGRG | 3 cut(s) | 41, 102, 269 |
| Bsp120I | GGGCCC | 1 cut(s) | 105 |
| Bsp1286I | GDGCHC | 4 cut(s) | 42, 90, 109, 276 |
| Bsp143I | GATC | 7 cut(s) | 199, 281, 285, 340, 397, 536, 583 |
| Bsp68I | TCGCGA | 1 cut(s) | 195 |
| BspACI | CCGC | 3 cut(s) | 150, 223, 452 |
| BspANI | GGCC | 3 cut(s) | 107, 267, 524 |
| BspCNI | CTCAG | 2 cut(s) | 104, 173 |
| BspDI | ATCGAT | 1 cut(s) | 284 |
| BspFNI | CGCG | 1 cut(s) | 195 |
| BspLI | GGNNCC | 5 cut(s) | 73, 107, 108, 142, 538 |
| BspPI | GGATC | 3 cut(s) | 194, 531, 544 |
| BspT107I | GGYRCC | 2 cut(s) | 71, 140 |
| BsrDI | GCAATG | 1 cut(s) | 538 |
| BsrFI | RCCGGY | 1 cut(s) | 137 |
| BsrI | ACTGG | 2 cut(s) | 412, 524 |
| BssAI | RCCGGY | 1 cut(s) | 137 |
| BssECI | CCNNGG | 5 cut(s) | 27, 42, 101, 102, 605 |
| BssMI | GATC | 7 cut(s) | 199, 281, 285, 340, 397, 536, 583 |
| BssNI | GRCGYC | 2 cut(s) | 81, 141 |
| BssT1I | CCWWGG | 1 cut(s) | 605 |
| Bst4CI | ACNGT | 2 cut(s) | 71, 491 |
| Bst6I | CTCTTC | 1 cut(s) | 318 |
| BstACI | GRCGYC | 2 cut(s) | 81, 141 |
| BstC8I | GCNNGC | 2 cut(s) | 348, 462 |
| BstDEI | CTNAG | 3 cut(s) | 91, 160, 168 |
| BstDSI | CCRYGG | 1 cut(s) | 27 |
| BstEII | GGTNACC | 1 cut(s) | 307 |
| BstF5I | GGATG | 1 cut(s) | 299 |
| BstFNI | CGCG | 1 cut(s) | 195 |
| BstH2I | RGCGCY | 1 cut(s) | 144 |
| BstHHI | GCGC | 3 cut(s) | 143, 430, 460 |
| BstKTI | GATC | 7 cut(s) | 202, 284, 288, 343, 400, 539, 586 |
| BstMAI | GTCTC | 1 cut(s) | 238 |
| BstMBI | GATC | 7 cut(s) | 199, 281, 285, 340, 397, 536, 583 |
| BstMCI | CGRYCG | 2 cut(s) | 284, 288 |
| BstMWI | GCNNNNNNNGC | 5 cut(s) | 11, 80, 149, 222, 464 |
| BstNSI | RCATGY | 1 cut(s) | 350 |
| BstPI | GGTNACC | 1 cut(s) | 307 |
| BstSCI | CCNGG | 2 cut(s) | 101, 102 |
| BstSLI | GKGCMC | 1 cut(s) | 109 |
| BstUI | CGCG | 1 cut(s) | 195 |
| BstV1I | GCAGC | 1 cut(s) | 451 |
| BstV2I | GAAGAC | 1 cut(s) | 179 |
| BstX2I | RGATCY | 2 cut(s) | 199, 536 |
| BstYI | RGATCY | 2 cut(s) | 199, 536 |
| Bsu15I | ATCGAT | 1 cut(s) | 284 |
| BsuRI | GGCC | 3 cut(s) | 107, 267, 524 |
| BsuTUI | ATCGAT | 1 cut(s) | 284 |
| BtgI | CCRYGG | 1 cut(s) | 27 |
| BtrI | CACGTC | 1 cut(s) | 19 |
| BtsCI | GGATG | 1 cut(s) | 299 |
| BtsIMutI | CAGTG | 1 cut(s) | 496 |
| BtuMI | TCGCGA | 1 cut(s) | 195 |
| Cac8I | GCNNGC | 2 cut(s) | 348, 462 |
| CfoI | GCGC | 3 cut(s) | 143, 430, 460 |
| Cfr10I | RCCGGY | 1 cut(s) | 137 |
| Cfr13I | GGNCC | 3 cut(s) | 105, 106, 522 |
| Cfr9I | CCCGGG | 1 cut(s) | 102 |
| ClaI | ATCGAT | 1 cut(s) | 284 |
| CseI | GACGC | 1 cut(s) | 89 |
| Csp6I | GTAC | 2 cut(s) | 405, 494 |
| CviAII | CATG | 3 cut(s) | 58, 320, 347 |
| CviQI | GTAC | 2 cut(s) | 405, 494 |
| DdeI | CTNAG | 3 cut(s) | 91, 160, 168 |
| DinI | GGCGCC | 1 cut(s) | 142 |
| DpnI | GATC | 7 cut(s) | 201, 283, 287, 342, 399, 538, 585 |
| DpnII | GATC | 7 cut(s) | 199, 281, 285, 340, 397, 536, 583 |
| DraI | TTTAAA | 1 cut(s) | 390 |
| DrdI | GACNNNNNNGTC | 1 cut(s) | 74 |
| DriI | GACNNNNNGTC | 1 cut(s) | 180 |
| DseDI | GACNNNNNNGTC | 1 cut(s) | 74 |
| Eam1104I | CTCTTC | 1 cut(s) | 318 |
| Eam1105I | GACNNNNNGTC | 1 cut(s) | 180 |
| EarI | CTCTTC | 1 cut(s) | 318 |
| EciI | GGCGGA | 1 cut(s) | 139 |
| Eco130I | CCWWGG | 1 cut(s) | 605 |
| Eco24I | GRGCYC | 4 cut(s) | 42, 90, 109, 276 |
| Eco57I | CTGAAG | 1 cut(s) | 511 |
| Eco88I | CYCGRG | 3 cut(s) | 41, 102, 269 |
| Eco91I | GGTNACC | 1 cut(s) | 307 |
| EcoO109I | RGGNCCY | 1 cut(s) | 106 |
| EcoO65I | GGTNACC | 1 cut(s) | 307 |
| EcoT14I | CCWWGG | 1 cut(s) | 605 |
| EcoT38I | GRGCYC | 4 cut(s) | 42, 90, 109, 276 |
| EgeI | GGCGCC | 1 cut(s) | 142 |
| EheI | GGCGCC | 1 cut(s) | 142 |
| ErhI | CCWWGG | 1 cut(s) | 605 |
| FaeI | CATG | 3 cut(s) | 61, 323, 350 |
| FaiI | YATR | 5 cut(s) | 59, 321, 348, 426, 441 |
| FatI | CATG | 3 cut(s) | 57, 319, 346 |
| FauI | CCCGC | 1 cut(s) | 230 |
| FblI | GTMKAC | 1 cut(s) | 78 |
| Fnu4HI | GCNGC | 1 cut(s) | 465 |
| FokI | GGATG | 1 cut(s) | 306 |
| FriOI | GRGCYC | 4 cut(s) | 42, 90, 109, 276 |
| Fsp4HI | GCNGC | 1 cut(s) | 465 |
| FspBI | CTAG | 2 cut(s) | 260, 606 |
| GlaI | GCGC | 3 cut(s) | 142, 429, 459 |
| GluI | GCNGC | 1 cut(s) | 465 |
| GsaI | CCCAGC | 1 cut(s) | 280 |
| HaeII | RGCGCY | 1 cut(s) | 144 |
| HaeIII | GGCC | 3 cut(s) | 107, 267, 524 |
| HapII | CCGG | 3 cut(s) | 103, 138, 312 |
| HgaI | GACGC | 1 cut(s) | 89 |
| HhaI | GCGC | 3 cut(s) | 143, 430, 460 |
| Hin1I | GRCGYC | 2 cut(s) | 81, 141 |
| Hin1II | CATG | 3 cut(s) | 61, 323, 350 |
| Hin6I | GCGC | 3 cut(s) | 141, 428, 458 |
| HinP1I | GCGC | 3 cut(s) | 141, 428, 458 |
| HincII | GTYRAC | 2 cut(s) | 79, 517 |
| HindII | GTYRAC | 2 cut(s) | 79, 517 |
| HinfI | GANTC | 3 cut(s) | 249, 315, 598 |
| HpaII | CCGG | 3 cut(s) | 103, 138, 312 |
| HphI | GGTGA | 2 cut(s) | 127, 371 |
| Hpy166II | GTNNAC | 4 cut(s) | 31, 79, 494, 517 |
| Hpy188I | TCNGA | 2 cut(s) | 238, 581 |
| Hpy188III | TCNNGA | 3 cut(s) | 194, 395, 474 |
| Hpy8I | GTNNAC | 4 cut(s) | 31, 79, 494, 517 |
| Hpy99I | CGWCG | 3 cut(s) | 80, 83, 591 |
| HpyAV | CCTTC | 2 cut(s) | 535, 550 |
| HpyCH4III | ACNGT | 2 cut(s) | 71, 491 |
| HpyCH4IV | ACGT | 1 cut(s) | 18 |
| HpyCH4V | TGCA | 3 cut(s) | 346, 385, 467 |
| HpyF10VI | GCNNNNNNNGC | 5 cut(s) | 11, 80, 149, 222, 464 |
| HpyF3I | CTNAG | 3 cut(s) | 91, 160, 168 |
| HpySE526I | ACGT | 1 cut(s) | 18 |
| Hsp92I | GRCGYC | 2 cut(s) | 81, 141 |
| Hsp92II | CATG | 3 cut(s) | 61, 323, 350 |
| HspAI | GCGC | 3 cut(s) | 141, 428, 458 |
| KasI | GGCGCC | 1 cut(s) | 140 |
| Kzo9I | GATC | 7 cut(s) | 199, 281, 285, 340, 397, 536, 583 |
| LmnI | GCTCC | 1 cut(s) | 169 |
| LpnPI | CCDG | 8 cut(s) | 116, 151, 290, 290, 325, 393, 487, 505 |
| Lsp1109I | GCAGC | 1 cut(s) | 451 |
| MaeI | CTAG | 2 cut(s) | 260, 606 |
| MaeII | ACGT | 1 cut(s) | 18 |
| MaeIII | GTNAC | 1 cut(s) | 307 |
| MalI | GATC | 7 cut(s) | 201, 283, 287, 342, 399, 538, 585 |
| MboI | GATC | 7 cut(s) | 199, 281, 285, 340, 397, 536, 583 |
| MboII | GAAGA | 5 cut(s) | 184, 209, 335, 347, 574 |
| MflI | RGATCY | 2 cut(s) | 199, 536 |
| MhlI | GDGCHC | 4 cut(s) | 42, 90, 109, 276 |
| MluCI | AATT | 3 cut(s) | 362, 379, 445 |
| Mly113I | GGCGCC | 1 cut(s) | 141 |
| MlyI | GAGTC | 2 cut(s) | 243, 607 |
| MseI | TTAA | 3 cut(s) | 389, 510, 619 |
| MspI | CCGG | 3 cut(s) | 103, 138, 312 |
| MspR9I | CCNGG | 2 cut(s) | 103, 104 |
| MvnI | CGCG | 1 cut(s) | 195 |
| MwoI | GCNNNNNNNGC | 5 cut(s) | 11, 80, 149, 222, 464 |
| NarI | GGCGCC | 1 cut(s) | 141 |
| NciI | CCSGG | 2 cut(s) | 103, 104 |
| NdeII | GATC | 7 cut(s) | 199, 281, 285, 340, 397, 536, 583 |
| NlaIII | CATG | 3 cut(s) | 61, 323, 350 |
| NlaIV | GGNNCC | 5 cut(s) | 73, 107, 108, 142, 538 |
| NmeAIII | GCCGAG | 1 cut(s) | 109 |
| NruI | TCGCGA | 1 cut(s) | 195 |
| NspI | RCATGY | 1 cut(s) | 350 |
| PaeI | GCATGC | 1 cut(s) | 350 |
| PaeR7I | CTCGAG | 1 cut(s) | 269 |
| PcsI | WCGNNNNNNNCGW | 2 cut(s) | 24, 75 |
| PfeI | GAWTC | 1 cut(s) | 315 |
| PkrI | GCNGC | 1 cut(s) | 466 |
| Ple19I | CGATCG | 2 cut(s) | 284, 288 |
| PleI | GAGTC | 2 cut(s) | 243, 606 |
| PluTI | GGCGCC | 1 cut(s) | 144 |
| PpsI | GAGTC | 2 cut(s) | 243, 606 |
| PspEI | GGTNACC | 1 cut(s) | 307 |
| PspFI | CCCAGC | 1 cut(s) | 276 |
| PspN4I | GGNNCC | 5 cut(s) | 73, 107, 108, 142, 538 |
| PspOMI | GGGCCC | 1 cut(s) | 105 |
| PspPI | GGNCC | 3 cut(s) | 105, 106, 522 |
| PspXI | VCTCGAGB | 1 cut(s) | 269 |
| PsuI | RGATCY | 2 cut(s) | 199, 536 |
| PvuI | CGATCG | 2 cut(s) | 284, 288 |
| RruI | TCGCGA | 1 cut(s) | 195 |
| RsaI | GTAC | 2 cut(s) | 406, 495 |
| RsaNI | GTAC | 2 cut(s) | 405, 494 |
| SalI | GTCGAC | 1 cut(s) | 77 |
| SaqAI | TTAA | 3 cut(s) | 389, 510, 619 |
| SatI | GCNGC | 1 cut(s) | 465 |
| Sau3AI | GATC | 7 cut(s) | 199, 281, 285, 340, 397, 536, 583 |
| Sau96I | GGNCC | 3 cut(s) | 105, 106, 522 |
| SchI | GAGTC | 2 cut(s) | 243, 607 |
| ScrFI | CCNGG | 2 cut(s) | 103, 104 |
| SduI | GDGCHC | 4 cut(s) | 42, 90, 109, 276 |
| SetI | ASST | 6 cut(s) | 21, 57, 123, 166, 184, 466 |
| SfoI | GGCGCC | 1 cut(s) | 142 |
| Sfr274I | CTCGAG | 1 cut(s) | 269 |
| SgrAI | CRCCGGYG | 1 cut(s) | 137 |
| SgrDI | CGTCGACG | 1 cut(s) | 77 |
| SlaI | CTCGAG | 1 cut(s) | 269 |
| SmaI | CCCGGG | 1 cut(s) | 104 |
| SmiI | ATTTAAAT | 1 cut(s) | 390 |
| SmlI | CTYRAG | 3 cut(s) | 122, 269, 592 |
| SmoI | CTYRAG | 3 cut(s) | 122, 269, 592 |
| SphI | GCATGC | 1 cut(s) | 350 |
| Sse9I | AATT | 3 cut(s) | 362, 379, 445 |
| SsiI | CCGC | 3 cut(s) | 150, 223, 452 |
| SspDI | GGCGCC | 1 cut(s) | 140 |
| SspMI | CTAG | 2 cut(s) | 260, 606 |
| StyD4I | CCNGG | 2 cut(s) | 101, 102 |
| StyI | CCWWGG | 1 cut(s) | 605 |
| SwaI | ATTTAAAT | 1 cut(s) | 390 |
| TaaI | ACNGT | 2 cut(s) | 71, 491 |
| TaiI | ACGT | 1 cut(s) | 21 |
| TaqI | TCGA | 5 cut(s) | 78, 184, 270, 284, 288 |
| TasI | AATT | 3 cut(s) | 362, 379, 445 |
| TatI | WGTACW | 1 cut(s) | 493 |
| TfiI | GAWTC | 1 cut(s) | 315 |
| Tru1I | TTAA | 3 cut(s) | 389, 510, 619 |
| Tru9I | TTAA | 3 cut(s) | 389, 510, 619 |
| TscAI | CASTG | 1 cut(s) | 496 |
| TseI | GCWGC | 1 cut(s) | 464 |
| TspDTI | ATGAA | 1 cut(s) | 336 |
| TspGWI | ACGGA | 2 cut(s) | 261, 498 |
| TspMI | CCCGGG | 1 cut(s) | 102 |
| TspRI | CASTG | 1 cut(s) | 496 |
| XapI | RAATTY | 3 cut(s) | 362, 379, 445 |
| XceI | RCATGY | 1 cut(s) | 350 |
| XhoI | CTCGAG | 1 cut(s) | 269 |
| XmaI | CCCGGG | 1 cut(s) | 102 |
| XmaJI | CCTAGG | 1 cut(s) | 605 |
| XmiI | GTMKAC | 1 cut(s) | 78 |
| XspI | CTAG | 2 cut(s) | 260, 606 |