ribonuclease H protein
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| APD1-4_N | PF16040 | 85 - 153 | 3e-16 | E3 ubiquitin-protein ligase APD1-4, N-terminal |
| APD1-4_M | PF16041 | 176 - 280 | 5.7e-24 | E3 ubiquitin-protein ligase APD1-4, middle domain |
| zf-C3HC4_3 | PF13920 | 341 - 390 | 2.1e-15 | Zinc finger, C3HC4 type (RING finger) |
| zf-RING_2 | PF13639 | 343 - 384 | 1.7e-06 | Ring finger domain |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| Acc36I | ACCTGC | 1 cut(s) | 1100 |
| AccB1I | GGYRCC | 1 cut(s) | 857 |
| AccII | CGCG | 1 cut(s) | 187 |
| AciI | CCGC | 2 cut(s) | 46, 1054 |
| AclWI | GGATC | 2 cut(s) | 756, 1121 |
| AcsI | RAATTY | 2 cut(s) | 455, 807 |
| AcuI | CTGAAG | 1 cut(s) | 294 |
| AcyI | GRCGYC | 1 cut(s) | 858 |
| AfaI | GTAC | 6 cut(s) | 107, 216, 557, 764, 880, 961 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 743 |
| AgsI | TTSAA | 2 cut(s) | 378, 847 |
| AhdI | GACNNNNNGTC | 1 cut(s) | 339 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 498, 530 |
| Alw21I | GWGCWC | 1 cut(s) | 1108 |
| Alw26I | GTCTC | 3 cut(s) | 50, 147, 908 |
| AlwI | GGATC | 2 cut(s) | 756, 1121 |
| AoxI | GGCC | 3 cut(s) | 37, 172, 651 |
| ApeKI | GCWGC | 2 cut(s) | 469, 1051 |
| ApoI | RAATTY | 2 cut(s) | 455, 807 |
| AseI | ATTAAT | 2 cut(s) | 909, 1161 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 1061 |
| AspLEI | GCGC | 3 cut(s) | 22, 189, 860 |
| AspS9I | GGNCC | 2 cut(s) | 38, 173 |
| AsuHPI | GGTGA | 3 cut(s) | 76, 139, 395 |
| AsuII | TTCGAA | 1 cut(s) | 459 |
| BanI | GGYRCC | 1 cut(s) | 857 |
| BanII | GRGCYC | 1 cut(s) | 67 |
| BauI | CACGAG | 1 cut(s) | 786 |
| BbsI | GAAGAC | 1 cut(s) | 897 |
| Bbv12I | GWGCWC | 1 cut(s) | 1108 |
| BbvCI | CCTCAGC | 1 cut(s) | 42 |
| BbvI | GCAGC | 2 cut(s) | 481, 1063 |
| BccI | CCATC | 3 cut(s) | 662, 753, 1115 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 100, 134 |
| BcoDI | GTCTC | 3 cut(s) | 50, 147, 908 |
| BfaI | CTAG | 1 cut(s) | 201 |
| BfmI | CTRYAG | 4 cut(s) | 337, 467, 882, 924 |
| BfoI | RGCGCY | 1 cut(s) | 861 |
| BfuAI | ACCTGC | 1 cut(s) | 1100 |
| BisI | GCNGC | 2 cut(s) | 470, 1052 |
| BlsI | GCNGC | 2 cut(s) | 471, 1053 |
| BmcAI | AGTACT | 1 cut(s) | 880 |
| BmeRI | GACNNNNNGTC | 1 cut(s) | 339 |
| BmgT120I | GGNCC | 2 cut(s) | 38, 173 |
| BmiI | GGNNCC | 1 cut(s) | 859 |
| BmsI | GCATC | 2 cut(s) | 618, 856 |
| BpiI | GAAGAC | 1 cut(s) | 897 |
| Bpu10I | CCTNAGC | 3 cut(s) | 42, 648, 692 |
| Bpu14I | TTCGAA | 1 cut(s) | 459 |
| BsaAI | YACGTR | 1 cut(s) | 15 |
| BsaHI | GRCGYC | 1 cut(s) | 858 |
| BsaJI | CCNNGG | 1 cut(s) | 853 |
| BsaWI | WCCGGW | 1 cut(s) | 31 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 743 |
| BseDI | CCNNGG | 1 cut(s) | 853 |
| BseGI | GGATG | 2 cut(s) | 764, 1126 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 743 |
| BseMII | CTCAG | 5 cut(s) | 56, 706, 861, 1017, 1121 |
| BseRI | GAGGAG | 2 cut(s) | 172, 991 |
| BseXI | GCAGC | 2 cut(s) | 481, 1063 |
| Bsh1236I | CGCG | 1 cut(s) | 187 |
| BshFI | GGCC | 3 cut(s) | 39, 174, 653 |
| BshNI | GGYRCC | 1 cut(s) | 857 |
| BsiHKAI | GWGCWC | 1 cut(s) | 1108 |
| BsiSI | CCGG | 1 cut(s) | 32 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 743 |
| BsmAI | GTCTC | 3 cut(s) | 50, 147, 908 |
| BsmI | GAATGC | 4 cut(s) | 22, 132, 499, 649 |
| BsnI | GGCC | 3 cut(s) | 39, 174, 653 |
| Bsp119I | TTCGAA | 1 cut(s) | 459 |
| Bsp1286I | GDGCHC | 2 cut(s) | 67, 1108 |
| Bsp1407I | TGTACA | 2 cut(s) | 105, 214 |
| Bsp143I | GATC | 3 cut(s) | 748, 831, 1113 |
| BspACI | CCGC | 2 cut(s) | 46, 1054 |
| BspANI | GGCC | 3 cut(s) | 39, 174, 653 |
| BspCNI | CTCAG | 5 cut(s) | 55, 705, 862, 1016, 1120 |
| BspFNI | CGCG | 1 cut(s) | 187 |
| BspHI | TCATGA | 1 cut(s) | 828 |
| BspLI | GGNNCC | 1 cut(s) | 859 |
| BspMAI | CTGCAG | 1 cut(s) | 471 |
| BspMI | ACCTGC | 1 cut(s) | 1100 |
| BspPI | GGATC | 2 cut(s) | 756, 1121 |
| BspQI | GCTCTTC | 1 cut(s) | 270 |
| BspT104I | TTCGAA | 1 cut(s) | 459 |
| BspT107I | GGYRCC | 1 cut(s) | 857 |
| BsrGI | TGTACA | 2 cut(s) | 105, 214 |
| BssECI | CCNNGG | 1 cut(s) | 853 |
| BssMI | GATC | 3 cut(s) | 748, 831, 1113 |
| BssNI | GRCGYC | 1 cut(s) | 858 |
| BssSI | CACGAG | 1 cut(s) | 786 |
| BssT1I | CCWWGG | 1 cut(s) | 853 |
| Bst2BI | CACGAG | 1 cut(s) | 786 |
| Bst4CI | ACNGT | 5 cut(s) | 161, 883, 943, 1085, 1103 |
| Bst6I | CTCTTC | 1 cut(s) | 270 |
| BstACI | GRCGYC | 1 cut(s) | 858 |
| BstAUI | TGTACA | 2 cut(s) | 105, 214 |
| BstBAI | YACGTR | 1 cut(s) | 15 |
| BstBI | TTCGAA | 1 cut(s) | 459 |
| BstC8I | GCNNGC | 2 cut(s) | 67, 689 |
| BstDEI | CTNAG | 7 cut(s) | 42, 282, 648, 692, 870, 1003, 1107 |
| BstF5I | GGATG | 2 cut(s) | 764, 1126 |
| BstFNI | CGCG | 1 cut(s) | 187 |
| BstH2I | RGCGCY | 1 cut(s) | 861 |
| BstHHI | GCGC | 3 cut(s) | 22, 189, 860 |
| BstKTI | GATC | 3 cut(s) | 751, 834, 1116 |
| BstMAI | GTCTC | 3 cut(s) | 50, 147, 908 |
| BstMBI | GATC | 3 cut(s) | 748, 831, 1113 |
| BstMWI | GCNNNNNNNGC | 2 cut(s) | 186, 866 |
| BstNSI | RCATGY | 1 cut(s) | 106 |
| BstSFI | CTRYAG | 4 cut(s) | 337, 467, 882, 924 |
| BstUI | CGCG | 1 cut(s) | 187 |
| BstV1I | GCAGC | 2 cut(s) | 481, 1063 |
| BstV2I | GAAGAC | 1 cut(s) | 897 |
| BstX2I | RGATCY | 1 cut(s) | 748 |
| BstXI | CCANNNNNNTGG | 1 cut(s) | 394 |
| BstYI | RGATCY | 1 cut(s) | 748 |
| BsuRI | GGCC | 3 cut(s) | 39, 174, 653 |
| BtsCI | GGATG | 2 cut(s) | 764, 1126 |
| BtsIMutI | CAGTG | 1 cut(s) | 1081 |
| BveI | ACCTGC | 1 cut(s) | 1100 |
| Cac8I | GCNNGC | 2 cut(s) | 67, 689 |
| CciI | TCATGA | 1 cut(s) | 828 |
| CfoI | GCGC | 3 cut(s) | 22, 189, 860 |
| Cfr13I | GGNCC | 2 cut(s) | 38, 173 |
| Csp6I | GTAC | 6 cut(s) | 106, 215, 556, 763, 879, 960 |
| CviAII | CATG | 7 cut(s) | 103, 388, 413, 436, 632, 829, 1117 |
| CviQI | GTAC | 6 cut(s) | 106, 215, 556, 763, 879, 960 |
| DdeI | CTNAG | 7 cut(s) | 42, 282, 648, 692, 870, 1003, 1107 |
| DinI | GGCGCC | 1 cut(s) | 859 |
| DpnI | GATC | 3 cut(s) | 750, 833, 1115 |
| DpnII | GATC | 3 cut(s) | 748, 831, 1113 |
| DriI | GACNNNNNGTC | 1 cut(s) | 339 |
| Eam1104I | CTCTTC | 1 cut(s) | 270 |
| Eam1105I | GACNNNNNGTC | 1 cut(s) | 339 |
| EarI | CTCTTC | 1 cut(s) | 270 |
| Eco130I | CCWWGG | 1 cut(s) | 853 |
| Eco24I | GRGCYC | 1 cut(s) | 67 |
| Eco32I | GATATC | 1 cut(s) | 384 |
| Eco57I | CTGAAG | 1 cut(s) | 294 |
| EcoRV | GATATC | 1 cut(s) | 384 |
| EcoT14I | CCWWGG | 1 cut(s) | 853 |
| EcoT22I | ATGCAT | 1 cut(s) | 633 |
| EcoT38I | GRGCYC | 1 cut(s) | 67 |
| EgeI | GGCGCC | 1 cut(s) | 859 |
| EheI | GGCGCC | 1 cut(s) | 859 |
| ErhI | CCWWGG | 1 cut(s) | 853 |
| FaeI | CATG | 7 cut(s) | 106, 391, 416, 439, 635, 832, 1120 |
| FatI | CATG | 7 cut(s) | 102, 387, 412, 435, 631, 828, 1116 |
| FauNDI | CATATG | 1 cut(s) | 955 |
| Fnu4HI | GCNGC | 2 cut(s) | 470, 1052 |
| FokI | GGATG | 2 cut(s) | 771, 1133 |
| FriOI | GRGCYC | 1 cut(s) | 67 |
| Fsp4HI | GCNGC | 2 cut(s) | 470, 1052 |
| FspBI | CTAG | 1 cut(s) | 201 |
| GlaI | GCGC | 3 cut(s) | 21, 188, 859 |
| GluI | GCNGC | 2 cut(s) | 470, 1052 |
| HaeII | RGCGCY | 1 cut(s) | 861 |
| HaeIII | GGCC | 3 cut(s) | 39, 174, 653 |
| HapII | CCGG | 1 cut(s) | 32 |
| HhaI | GCGC | 3 cut(s) | 22, 189, 860 |
| Hin1I | GRCGYC | 1 cut(s) | 858 |
| Hin1II | CATG | 7 cut(s) | 106, 391, 416, 439, 635, 832, 1120 |
| Hin6I | GCGC | 3 cut(s) | 20, 187, 858 |
| HinP1I | GCGC | 3 cut(s) | 20, 187, 858 |
| HinfI | GANTC | 3 cut(s) | 28, 506, 980 |
| HpaII | CCGG | 1 cut(s) | 32 |
| HphI | GGTGA | 3 cut(s) | 76, 139, 395 |
| Hpy166II | GTNNAC | 1 cut(s) | 108 |
| Hpy188I | TCNGA | 3 cut(s) | 274, 1006, 1110 |
| Hpy188III | TCNNGA | 2 cut(s) | 829, 984 |
| Hpy8I | GTNNAC | 1 cut(s) | 108 |
| Hpy99I | CGWCG | 1 cut(s) | 625 |
| HpyAV | CCTTC | 1 cut(s) | 1146 |
| HpyCH4III | ACNGT | 5 cut(s) | 161, 883, 943, 1085, 1103 |
| HpyCH4IV | ACGT | 1 cut(s) | 14 |
| HpyCH4V | TGCA | 2 cut(s) | 469, 631 |
| HpyF10VI | GCNNNNNNNGC | 2 cut(s) | 186, 866 |
| HpyF3I | CTNAG | 7 cut(s) | 42, 282, 648, 692, 870, 1003, 1107 |
| HpySE526I | ACGT | 1 cut(s) | 14 |
| Hsp92I | GRCGYC | 1 cut(s) | 858 |
| Hsp92II | CATG | 7 cut(s) | 106, 391, 416, 439, 635, 832, 1120 |
| HspAI | GCGC | 3 cut(s) | 20, 187, 858 |
| KasI | GGCGCC | 1 cut(s) | 857 |
| Kzo9I | GATC | 3 cut(s) | 748, 831, 1113 |
| LguI | GCTCTTC | 1 cut(s) | 270 |
| LmnI | GCTCC | 4 cut(s) | 166, 185, 986, 1004 |
| LpnPI | CCDG | 8 cut(s) | 45, 346, 538, 679, 701, 874, 969, 1105 |
| Lsp1109I | GCAGC | 2 cut(s) | 481, 1063 |
| LweI | GCATC | 2 cut(s) | 618, 856 |
| MaeI | CTAG | 1 cut(s) | 201 |
| MaeII | ACGT | 1 cut(s) | 14 |
| MaeIII | GTNAC | 1 cut(s) | 1079 |
| MalI | GATC | 3 cut(s) | 750, 833, 1115 |
| MboI | GATC | 3 cut(s) | 748, 831, 1113 |
| MflI | RGATCY | 1 cut(s) | 748 |
| MhlI | GDGCHC | 2 cut(s) | 67, 1108 |
| MluCI | AATT | 8 cut(s) | 114, 301, 455, 513, 807, 906, 1010, 1143 |
| Mly113I | GGCGCC | 1 cut(s) | 858 |
| MlyI | GAGTC | 1 cut(s) | 22 |
| MnlI | CCTC | 7 cut(s) | 51, 189, 193, 535, 1000, 1012, 1104 |
| Mph1103I | ATGCAT | 1 cut(s) | 633 |
| MroXI | GAANNNNTTC | 1 cut(s) | 1061 |
| MseI | TTAA | 8 cut(s) | 330, 365, 441, 501, 909, 1161, 1182, 1189 |
| MslI | CAYNNNNRTG | 1 cut(s) | 602 |
| MspA1I | CMGCKG | 2 cut(s) | 46, 1054 |
| MspI | CCGG | 1 cut(s) | 32 |
| Mva1269I | GAATGC | 4 cut(s) | 22, 132, 499, 649 |
| MvnI | CGCG | 1 cut(s) | 187 |
| MwoI | GCNNNNNNNGC | 2 cut(s) | 186, 866 |
| NarI | GGCGCC | 1 cut(s) | 858 |
| NdeI | CATATG | 1 cut(s) | 955 |
| NdeII | GATC | 3 cut(s) | 748, 831, 1113 |
| NlaIII | CATG | 7 cut(s) | 106, 391, 416, 439, 635, 832, 1120 |
| NlaIV | GGNNCC | 1 cut(s) | 859 |
| NmuCI | GTSAC | 1 cut(s) | 1079 |
| NsiI | ATGCAT | 1 cut(s) | 633 |
| NspI | RCATGY | 1 cut(s) | 106 |
| NspV | TTCGAA | 1 cut(s) | 459 |
| PagI | TCATGA | 1 cut(s) | 828 |
| PciSI | GCTCTTC | 1 cut(s) | 270 |
| PctI | GAATGC | 4 cut(s) | 22, 132, 499, 649 |
| PdmI | GAANNNNTTC | 1 cut(s) | 1061 |
| PfeI | GAWTC | 2 cut(s) | 506, 980 |
| PkrI | GCNGC | 2 cut(s) | 471, 1053 |
| PleI | GAGTC | 1 cut(s) | 22 |
| PluTI | GGCGCC | 1 cut(s) | 861 |
| PpsI | GAGTC | 1 cut(s) | 22 |
| Ppu21I | YACGTR | 1 cut(s) | 15 |
| PshBI | ATTAAT | 2 cut(s) | 909, 1161 |
| PspN4I | GGNNCC | 1 cut(s) | 859 |
| PspPI | GGNCC | 2 cut(s) | 38, 173 |
| PstI | CTGCAG | 1 cut(s) | 471 |
| PsuI | RGATCY | 1 cut(s) | 748 |
| RsaI | GTAC | 6 cut(s) | 107, 216, 557, 764, 880, 961 |
| RsaNI | GTAC | 6 cut(s) | 106, 215, 556, 763, 879, 960 |
| RseI | CAYNNNNRTG | 1 cut(s) | 602 |
| SapI | GCTCTTC | 1 cut(s) | 270 |
| SaqAI | TTAA | 8 cut(s) | 330, 365, 441, 501, 909, 1161, 1182, 1189 |
| SatI | GCNGC | 2 cut(s) | 470, 1052 |
| Sau3AI | GATC | 3 cut(s) | 748, 831, 1113 |
| Sau96I | GGNCC | 2 cut(s) | 38, 173 |
| ScaI | AGTACT | 1 cut(s) | 880 |
| SchI | GAGTC | 1 cut(s) | 22 |
| SduI | GDGCHC | 2 cut(s) | 67, 1108 |
| SfaNI | GCATC | 2 cut(s) | 618, 856 |
| SfcI | CTRYAG | 4 cut(s) | 337, 467, 882, 924 |
| SfoI | GGCGCC | 1 cut(s) | 859 |
| SfuI | TTCGAA | 1 cut(s) | 459 |
| SmiMI | CAYNNNNRTG | 1 cut(s) | 602 |
| Sse9I | AATT | 8 cut(s) | 114, 301, 455, 513, 807, 906, 1010, 1143 |
| SsiI | CCGC | 2 cut(s) | 46, 1054 |
| SspDI | GGCGCC | 1 cut(s) | 857 |
| SspI | AATATT | 1 cut(s) | 843 |
| SspMI | CTAG | 1 cut(s) | 201 |
| StyI | CCWWGG | 1 cut(s) | 853 |
| TaaI | ACNGT | 5 cut(s) | 161, 883, 943, 1085, 1103 |
| TaiI | ACGT | 1 cut(s) | 17 |
| TaqI | TCGA | 8 cut(s) | 7, 26, 136, 459, 623, 662, 768, 992 |
| TasI | AATT | 8 cut(s) | 114, 301, 455, 513, 807, 906, 1010, 1143 |
| TatI | WGTACW | 3 cut(s) | 105, 214, 878 |
| TfiI | GAWTC | 2 cut(s) | 506, 980 |
| Tru1I | TTAA | 8 cut(s) | 330, 365, 441, 501, 909, 1161, 1182, 1189 |
| Tru9I | TTAA | 8 cut(s) | 330, 365, 441, 501, 909, 1161, 1182, 1189 |
| TscAI | CASTG | 1 cut(s) | 1088 |
| TseFI | GTSAC | 1 cut(s) | 1079 |
| TseI | GCWGC | 2 cut(s) | 469, 1051 |
| Tsp45I | GTSAC | 1 cut(s) | 1079 |
| TspDTI | ATGAA | 3 cut(s) | 519, 620, 981 |
| TspGWI | ACGGA | 1 cut(s) | 466 |
| TspRI | CASTG | 1 cut(s) | 1088 |
| VspI | ATTAAT | 2 cut(s) | 909, 1161 |
| XapI | RAATTY | 2 cut(s) | 455, 807 |
| XceI | RCATGY | 1 cut(s) | 106 |
| XmnI | GAANNNNTTC | 1 cut(s) | 1061 |
| XspI | CTAG | 1 cut(s) | 201 |
| ZrmI | AGTACT | 1 cut(s) | 880 |
| Zsp2I | ATGCAT | 1 cut(s) | 633 |