Ribonuclease H protein
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Exo_endo_phos | PF03372 | 7 - 91 | 2.3e-06 | Endonuclease/Exonuclease/phosphatase family |
Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.
| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AanI | TTATAA | 1 cut(s) | 978 |
| AciI | CCGC | 1 cut(s) | 949 |
| AclWI | GGATC | 5 cut(s) | 198, 225, 399, 594, 825 |
| AcoI | YGGCCR | 1 cut(s) | 1077 |
| AcsI | RAATTY | 2 cut(s) | 255, 294 |
| AcuI | CTGAAG | 1 cut(s) | 596 |
| AfaI | GTAC | 1 cut(s) | 1129 |
| AfiI | CCNNNNNNNGG | 4 cut(s) | 167, 187, 720, 1086 |
| AgeI | ACCGGT | 1 cut(s) | 1108 |
| AgsI | TTSAA | 5 cut(s) | 60, 386, 517, 621, 752 |
| AjnI | CCWGG | 1 cut(s) | 772 |
| AluBI | AGCT | 8 cut(s) | 308, 346, 502, 566, 770, 946, 959, 1084 |
| AluI | AGCT | 8 cut(s) | 308, 346, 502, 566, 770, 946, 959, 1084 |
| Alw21I | GWGCWC | 3 cut(s) | 909, 948, 1044 |
| Alw26I | GTCTC | 1 cut(s) | 510 |
| AlwI | GGATC | 5 cut(s) | 198, 225, 399, 594, 825 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 1020 |
| Ama87I | CYCGRG | 1 cut(s) | 561 |
| AoxI | GGCC | 3 cut(s) | 775, 1077, 1155 |
| ApeKI | GCWGC | 1 cut(s) | 172 |
| ApoI | RAATTY | 2 cut(s) | 255, 294 |
| AsiGI | ACCGGT | 1 cut(s) | 1108 |
| AspS9I | GGNCC | 2 cut(s) | 776, 928 |
| AsuC2I | CCSGG | 2 cut(s) | 779, 1073 |
| AsuHPI | GGTGA | 6 cut(s) | 170, 293, 352, 500, 745, 847 |
| AvaI | CYCGRG | 1 cut(s) | 561 |
| AvaII | GGWCC | 1 cut(s) | 928 |
| AxyI | CCTNAGG | 1 cut(s) | 321 |
| BanII | GRGCYC | 1 cut(s) | 948 |
| Bbv12I | GWGCWC | 3 cut(s) | 909, 948, 1044 |
| BbvI | GCAGC | 1 cut(s) | 184 |
| BccI | CCATC | 4 cut(s) | 222, 575, 615, 776 |
| BcgI | CGANNNNNNTGC | 4 cut(s) | 542, 576, 886, 920 |
| BciT130I | CCWGG | 1 cut(s) | 774 |
| BcnI | CCSGG | 2 cut(s) | 779, 1073 |
| BcoDI | GTCTC | 1 cut(s) | 510 |
| BfaI | CTAG | 1 cut(s) | 327 |
| BfmI | CTRYAG | 1 cut(s) | 1209 |
| BglII | AGATCT | 1 cut(s) | 557 |
| BisI | GCNGC | 1 cut(s) | 173 |
| BlsI | GCNGC | 1 cut(s) | 174 |
| BmcAI | AGTACT | 1 cut(s) | 1129 |
| Bme1390I | CCNGG | 3 cut(s) | 774, 779, 1073 |
| Bme18I | GGWCC | 1 cut(s) | 928 |
| BmeT110I | CYCGRG | 1 cut(s) | 561 |
| BmgT120I | GGNCC | 2 cut(s) | 776, 928 |
| BmrFI | CCNGG | 3 cut(s) | 774, 779, 1073 |
| BmsI | GCATC | 2 cut(s) | 766, 995 |
| BpmI | CTGGAG | 2 cut(s) | 568, 997 |
| Bpu10I | CCTNAGC | 2 cut(s) | 1085, 1186 |
| BpuMI | CCSGG | 2 cut(s) | 779, 1073 |
| BsaBI | GATNNNNATC | 1 cut(s) | 585 |
| BsaJI | CCNNGG | 1 cut(s) | 688 |
| BsaWI | WCCGGW | 1 cut(s) | 1108 |
| Bsc4I | CCNNNNNNNGG | 4 cut(s) | 167, 187, 720, 1086 |
| Bse118I | RCCGGY | 1 cut(s) | 1108 |
| Bse1I | ACTGG | 2 cut(s) | 181, 551 |
| Bse21I | CCTNAGG | 1 cut(s) | 321 |
| Bse8I | GATNNNNATC | 1 cut(s) | 585 |
| BseBI | CCWGG | 1 cut(s) | 774 |
| BseDI | CCNNGG | 1 cut(s) | 688 |
| BseGI | GGATG | 7 cut(s) | 112, 130, 157, 586, 757, 787, 986 |
| BseJI | GATNNNNATC | 1 cut(s) | 585 |
| BseLI | CCNNNNNNNGG | 4 cut(s) | 167, 187, 720, 1086 |
| BseMII | CTCAG | 2 cut(s) | 335, 933 |
| BseNI | ACTGG | 2 cut(s) | 181, 551 |
| BseRI | GAGGAG | 3 cut(s) | 306, 309, 443 |
| BseXI | GCAGC | 1 cut(s) | 184 |
| BsgI | GTGCAG | 1 cut(s) | 48 |
| Bsh1285I | CGRYCG | 2 cut(s) | 25, 1001 |
| BshFI | GGCC | 3 cut(s) | 777, 1079, 1157 |
| BshTI | ACCGGT | 1 cut(s) | 1108 |
| BsiEI | CGRYCG | 2 cut(s) | 25, 1001 |
| BsiHKAI | GWGCWC | 3 cut(s) | 909, 948, 1044 |
| BsiHKCI | CYCGRG | 1 cut(s) | 561 |
| BsiSI | CCGG | 3 cut(s) | 779, 1072, 1109 |
| BslFI | GGGAC | 2 cut(s) | 48, 65 |
| BslI | CCNNNNNNNGG | 4 cut(s) | 167, 187, 720, 1086 |
| BsmAI | GTCTC | 1 cut(s) | 510 |
| BsmFI | GGGAC | 2 cut(s) | 48, 65 |
| BsnI | GGCC | 3 cut(s) | 777, 1079, 1157 |
| BsoBI | CYCGRG | 1 cut(s) | 561 |
| Bsp1286I | GDGCHC | 3 cut(s) | 909, 948, 1044 |
| BspACI | CCGC | 1 cut(s) | 949 |
| BspANI | GGCC | 3 cut(s) | 777, 1079, 1157 |
| BspCNI | CTCAG | 2 cut(s) | 334, 934 |
| BspPI | GGATC | 5 cut(s) | 198, 225, 399, 594, 825 |
| BspQI | GCTCTTC | 1 cut(s) | 48 |
| BsrFI | RCCGGY | 1 cut(s) | 1108 |
| BsrI | ACTGG | 2 cut(s) | 181, 551 |
| BssAI | RCCGGY | 1 cut(s) | 1108 |
| BssECI | CCNNGG | 1 cut(s) | 688 |
| BssT1I | CCWWGG | 1 cut(s) | 688 |
| Bst2UI | CCWGG | 1 cut(s) | 774 |
| Bst4CI | ACNGT | 1 cut(s) | 1022 |
| Bst6I | CTCTTC | 3 cut(s) | 48, 450, 723 |
| BstC8I | GCNNGC | 1 cut(s) | 7 |
| BstDEI | CTNAG | 6 cut(s) | 321, 942, 1048, 1085, 1179, 1186 |
| BstF5I | GGATG | 7 cut(s) | 112, 130, 157, 586, 757, 787, 986 |
| BstMAI | GTCTC | 1 cut(s) | 510 |
| BstMCI | CGRYCG | 2 cut(s) | 25, 1001 |
| BstNI | CCWGG | 1 cut(s) | 774 |
| BstSCI | CCNGG | 3 cut(s) | 772, 777, 1071 |
| BstSFI | CTRYAG | 1 cut(s) | 1209 |
| BstV1I | GCAGC | 1 cut(s) | 184 |
| BstX2I | RGATCY | 3 cut(s) | 190, 557, 817 |
| BstYI | RGATCY | 3 cut(s) | 190, 557, 817 |
| Bsu36I | CCTNAGG | 1 cut(s) | 321 |
| BsuRI | GGCC | 3 cut(s) | 777, 1079, 1157 |
| BtsCI | GGATG | 7 cut(s) | 112, 130, 157, 586, 757, 787, 986 |
| BtsI | GCAGTG | 1 cut(s) | 708 |
| BtsIMutI | CAGTG | 1 cut(s) | 708 |
| Cac8I | GCNNGC | 1 cut(s) | 7 |
| CaiI | CAGNNNCTG | 1 cut(s) | 1020 |
| Cfr10I | RCCGGY | 1 cut(s) | 1108 |
| Cfr13I | GGNCC | 2 cut(s) | 776, 928 |
| CseI | GACGC | 1 cut(s) | 164 |
| Csp6I | GTAC | 1 cut(s) | 1128 |
| CspAI | ACCGGT | 1 cut(s) | 1108 |
| CviAII | CATG | 2 cut(s) | 449, 881 |
| CviQI | GTAC | 1 cut(s) | 1128 |
| DdeI | CTNAG | 6 cut(s) | 321, 942, 1048, 1085, 1179, 1186 |
| EaeI | YGGCCR | 1 cut(s) | 1077 |
| Eam1104I | CTCTTC | 3 cut(s) | 48, 450, 723 |
| EarI | CTCTTC | 3 cut(s) | 48, 450, 723 |
| EciI | GGCGGA | 1 cut(s) | 938 |
| Ecl136II | GAGCTC | 1 cut(s) | 946 |
| Eco130I | CCWWGG | 1 cut(s) | 688 |
| Eco24I | GRGCYC | 1 cut(s) | 948 |
| Eco47I | GGWCC | 1 cut(s) | 928 |
| Eco53kI | GAGCTC | 1 cut(s) | 946 |
| Eco57I | CTGAAG | 1 cut(s) | 596 |
| Eco81I | CCTNAGG | 1 cut(s) | 321 |
| Eco88I | CYCGRG | 1 cut(s) | 561 |
| EcoICRI | GAGCTC | 1 cut(s) | 946 |
| EcoRII | CCWGG | 1 cut(s) | 772 |
| EcoT14I | CCWWGG | 1 cut(s) | 688 |
| EcoT22I | ATGCAT | 1 cut(s) | 759 |
| EcoT38I | GRGCYC | 1 cut(s) | 948 |
| ErhI | CCWWGG | 1 cut(s) | 688 |
| FaeI | CATG | 2 cut(s) | 452, 884 |
| FaqI | GGGAC | 2 cut(s) | 48, 65 |
| FatI | CATG | 2 cut(s) | 448, 880 |
| FauNDI | CATATG | 1 cut(s) | 936 |
| Fnu4HI | GCNGC | 1 cut(s) | 173 |
| FokI | GGATG | 7 cut(s) | 119, 137, 144, 593, 744, 794, 973 |
| FriOI | GRGCYC | 1 cut(s) | 948 |
| Fsp4HI | GCNGC | 1 cut(s) | 173 |
| FspBI | CTAG | 1 cut(s) | 327 |
| GluI | GCNGC | 1 cut(s) | 173 |
| GsuI | CTGGAG | 2 cut(s) | 568, 997 |
| HaeIII | GGCC | 3 cut(s) | 777, 1079, 1157 |
| HapII | CCGG | 3 cut(s) | 779, 1072, 1109 |
| HgaI | GACGC | 1 cut(s) | 164 |
| Hin1II | CATG | 2 cut(s) | 452, 884 |
| HincII | GTYRAC | 1 cut(s) | 531 |
| HindII | GTYRAC | 1 cut(s) | 531 |
| HinfI | GANTC | 6 cut(s) | 18, 36, 56, 313, 331, 365 |
| HpaII | CCGG | 3 cut(s) | 779, 1072, 1109 |
| HphI | GGTGA | 6 cut(s) | 170, 293, 352, 500, 745, 847 |
| Hpy166II | GTNNAC | 1 cut(s) | 531 |
| Hpy188I | TCNGA | 4 cut(s) | 77, 354, 807, 888 |
| Hpy188III | TCNNGA | 5 cut(s) | 161, 221, 485, 561, 1221 |
| Hpy8I | GTNNAC | 1 cut(s) | 531 |
| Hpy99I | CGWCG | 8 cut(s) | 441, 1142, 1156, 1177, 1196, 1207, 1222, 1236 |
| HpyAV | CCTTC | 7 cut(s) | 207, 487, 571, 730, 865, 1024, 1190 |
| HpyCH4III | ACNGT | 1 cut(s) | 1022 |
| HpyCH4V | TGCA | 6 cut(s) | 29, 239, 460, 757, 845, 986 |
| HpyF3I | CTNAG | 6 cut(s) | 321, 942, 1048, 1085, 1179, 1186 |
| Hsp92II | CATG | 2 cut(s) | 452, 884 |
| LguI | GCTCTTC | 1 cut(s) | 48 |
| LmnI | GCTCC | 3 cut(s) | 775, 951, 1039 |
| Lsp1109I | GCAGC | 1 cut(s) | 184 |
| LweI | GCATC | 2 cut(s) | 766, 995 |
| MaeI | CTAG | 1 cut(s) | 327 |
| MaeIII | GTNAC | 3 cut(s) | 176, 281, 1111 |
| MboII | GAAGA | 8 cut(s) | 35, 82, 426, 437, 643, 646, 740, 790 |
| MflI | RGATCY | 3 cut(s) | 190, 557, 817 |
| MhlI | GDGCHC | 3 cut(s) | 909, 948, 1044 |
| MluCI | AATT | 9 cut(s) | 60, 85, 111, 255, 294, 357, 592, 889, 1168 |
| MlyI | GAGTC | 5 cut(s) | 27, 30, 307, 340, 359 |
| MmeI | TCCRAC | 5 cut(s) | 332, 405, 705, 955, 1017 |
| Mph1103I | ATGCAT | 1 cut(s) | 759 |
| MseI | TTAA | 6 cut(s) | 249, 360, 405, 524, 644, 915 |
| MslI | CAYNNNNRTG | 2 cut(s) | 516, 612 |
| MspA1I | CMGCKG | 1 cut(s) | 502 |
| MspI | CCGG | 3 cut(s) | 779, 1072, 1109 |
| MspR9I | CCNGG | 3 cut(s) | 774, 779, 1073 |
| MvaI | CCWGG | 1 cut(s) | 774 |
| NciI | CCSGG | 2 cut(s) | 779, 1073 |
| NdeI | CATATG | 1 cut(s) | 936 |
| NlaIII | CATG | 2 cut(s) | 452, 884 |
| NmeAIII | GCCGAG | 1 cut(s) | 1105 |
| NmuCI | GTSAC | 3 cut(s) | 176, 281, 1111 |
| NsiI | ATGCAT | 1 cut(s) | 759 |
| PaeR7I | CTCGAG | 1 cut(s) | 561 |
| PciSI | GCTCTTC | 1 cut(s) | 48 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 18 |
| PfeI | GAWTC | 1 cut(s) | 56 |
| PflFI | GACNNNGTC | 1 cut(s) | 17 |
| PinAI | ACCGGT | 1 cut(s) | 1108 |
| PkrI | GCNGC | 1 cut(s) | 174 |
| Ple19I | CGATCG | 2 cut(s) | 25, 1001 |
| PleI | GAGTC | 5 cut(s) | 26, 30, 307, 339, 359 |
| PpsI | GAGTC | 5 cut(s) | 26, 30, 307, 339, 359 |
| PsiI | TTATAA | 1 cut(s) | 978 |
| Psp124BI | GAGCTC | 1 cut(s) | 948 |
| Psp6I | CCWGG | 1 cut(s) | 772 |
| PspGI | CCWGG | 1 cut(s) | 772 |
| PspPI | GGNCC | 2 cut(s) | 776, 928 |
| PstNI | CAGNNNCTG | 1 cut(s) | 1020 |
| PsuI | RGATCY | 3 cut(s) | 190, 557, 817 |
| PsyI | GACNNNGTC | 1 cut(s) | 17 |
| PvuI | CGATCG | 2 cut(s) | 25, 1001 |
| PvuII | CAGCTG | 1 cut(s) | 502 |
| RsaI | GTAC | 1 cut(s) | 1129 |
| RsaNI | GTAC | 1 cut(s) | 1128 |
| RseI | CAYNNNNRTG | 2 cut(s) | 516, 612 |
| SacI | GAGCTC | 1 cut(s) | 948 |
| SapI | GCTCTTC | 1 cut(s) | 48 |
| SaqAI | TTAA | 6 cut(s) | 249, 360, 405, 524, 644, 915 |
| SatI | GCNGC | 1 cut(s) | 173 |
| Sau96I | GGNCC | 2 cut(s) | 776, 928 |
| ScaI | AGTACT | 1 cut(s) | 1129 |
| SchI | GAGTC | 5 cut(s) | 27, 30, 307, 340, 359 |
| ScrFI | CCNGG | 3 cut(s) | 774, 779, 1073 |
| SduI | GDGCHC | 3 cut(s) | 909, 948, 1044 |
| SfaNI | GCATC | 2 cut(s) | 766, 995 |
| SfcI | CTRYAG | 1 cut(s) | 1209 |
| Sfr274I | CTCGAG | 1 cut(s) | 561 |
| SinI | GGWCC | 1 cut(s) | 928 |
| SlaI | CTCGAG | 1 cut(s) | 561 |
| SmiMI | CAYNNNNRTG | 2 cut(s) | 516, 612 |
| SmlI | CTYRAG | 1 cut(s) | 561 |
| SmoI | CTYRAG | 1 cut(s) | 561 |
| Sse9I | AATT | 9 cut(s) | 60, 85, 111, 255, 294, 357, 592, 889, 1168 |
| SsiI | CCGC | 1 cut(s) | 949 |
| SspI | AATATT | 1 cut(s) | 1146 |
| SspMI | CTAG | 1 cut(s) | 327 |
| SstI | GAGCTC | 1 cut(s) | 948 |
| StyD4I | CCNGG | 3 cut(s) | 772, 777, 1071 |
| StyI | CCWWGG | 1 cut(s) | 688 |
| TaaI | ACNGT | 1 cut(s) | 1022 |
| TaqI | TCGA | 6 cut(s) | 12, 21, 292, 484, 562, 831 |
| TaqII | GACCGA | 2 cut(s) | 61, 384 |
| TasI | AATT | 9 cut(s) | 60, 85, 111, 255, 294, 357, 592, 889, 1168 |
| TatI | WGTACW | 1 cut(s) | 1127 |
| TfiI | GAWTC | 1 cut(s) | 56 |
| Tru1I | TTAA | 6 cut(s) | 249, 360, 405, 524, 644, 915 |
| Tru9I | TTAA | 6 cut(s) | 249, 360, 405, 524, 644, 915 |
| TscAI | CASTG | 1 cut(s) | 715 |
| TseFI | GTSAC | 3 cut(s) | 176, 281, 1111 |
| TseI | GCWGC | 1 cut(s) | 172 |
| Tsp45I | GTSAC | 3 cut(s) | 176, 281, 1111 |
| TspDTI | ATGAA | 3 cut(s) | 267, 437, 1092 |
| TspRI | CASTG | 1 cut(s) | 715 |
| Tth111I | GACNNNGTC | 1 cut(s) | 17 |
| VpaK11BI | GGWCC | 1 cut(s) | 928 |
| XapI | RAATTY | 2 cut(s) | 255, 294 |
| XhoI | CTCGAG | 1 cut(s) | 561 |
| XspI | CTAG | 1 cut(s) | 327 |
| ZrmI | AGTACT | 1 cut(s) | 1129 |
| Zsp2I | ATGCAT | 1 cut(s) | 759 |