DNA-directed RNA polymerases I, II, and III subunit
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| RNA_pol_Rpb5_N | PF03871 | 1 - 72 | 2.1e-21 | RNA polymerase Rpb5, N-terminal domain |
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) |
|---|---|---|---|
| AclWI | GGATC | 1 cut(s) | 45 |
| AcsI | RAATTY | 1 cut(s) | 147 |
| AfaI | GTAC | 1 cut(s) | 308 |
| AgsI | TTSAA | 2 cut(s) | 303, 316 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 162, 194 |
| AlwI | GGATC | 1 cut(s) | 45 |
| ApoI | RAATTY | 1 cut(s) | 147 |
| AseI | ATTAAT | 1 cut(s) | 114 |
| AspS9I | GGNCC | 1 cut(s) | 103 |
| AsuHPI | GGTGA | 1 cut(s) | 143 |
| AvaII | GGWCC | 1 cut(s) | 103 |
| BclI | TGATCA | 1 cut(s) | 142 |
| Bme18I | GGWCC | 1 cut(s) | 103 |
| BmgT120I | GGNCC | 1 cut(s) | 103 |
| BsaBI | GATNNNNATC | 1 cut(s) | 42 |
| Bse8I | GATNNNNATC | 1 cut(s) | 42 |
| BseJI | GATNNNNATC | 1 cut(s) | 42 |
| BslFI | GGGAC | 1 cut(s) | 35 |
| BsmFI | GGGAC | 1 cut(s) | 35 |
| Bsp143I | GATC | 4 cut(s) | 16, 37, 43, 142 |
| BspPI | GGATC | 1 cut(s) | 45 |
| BssMI | GATC | 4 cut(s) | 16, 37, 43, 142 |
| Bst6I | CTCTTC | 1 cut(s) | 119 |
| BstDEI | CTNAG | 1 cut(s) | 244 |
| BstKTI | GATC | 4 cut(s) | 19, 40, 46, 145 |
| BstMBI | GATC | 4 cut(s) | 16, 37, 43, 142 |
| BstNSI | RCATGY | 1 cut(s) | 213 |
| Cfr13I | GGNCC | 1 cut(s) | 103 |
| Csp6I | GTAC | 1 cut(s) | 307 |
| CviAII | CATG | 5 cut(s) | 52, 80, 91, 210, 214 |
| CviQI | GTAC | 1 cut(s) | 307 |
| DdeI | CTNAG | 1 cut(s) | 244 |
| DpnI | GATC | 4 cut(s) | 18, 39, 45, 144 |
| DpnII | GATC | 4 cut(s) | 16, 37, 43, 142 |
| DraI | TTTAAA | 1 cut(s) | 70 |
| Eam1104I | CTCTTC | 1 cut(s) | 119 |
| EarI | CTCTTC | 1 cut(s) | 119 |
| Eco47I | GGWCC | 1 cut(s) | 103 |
| EcoO109I | RGGNCCY | 1 cut(s) | 103 |
| EcoT22I | ATGCAT | 1 cut(s) | 215 |
| FaeI | CATG | 5 cut(s) | 55, 83, 94, 213, 217 |
| FaiI | YATR | 6 cut(s) | 53, 81, 92, 153, 211, 215 |
| FalI | AAGNNNNNCTT | 1 cut(s) | 296 |
| FaqI | GGGAC | 1 cut(s) | 35 |
| FatI | CATG | 5 cut(s) | 51, 79, 90, 209, 213 |
| FbaI | TGATCA | 1 cut(s) | 142 |
| Hin1II | CATG | 5 cut(s) | 55, 83, 94, 213, 217 |
| HinfI | GANTC | 1 cut(s) | 137 |
| HphI | GGTGA | 1 cut(s) | 143 |
| Hpy188I | TCNGA | 1 cut(s) | 142 |
| Hpy188III | TCNNGA | 4 cut(s) | 20, 41, 187, 316 |
| HpyAV | CCTTC | 1 cut(s) | 114 |
| HpyCH4V | TGCA | 3 cut(s) | 4, 213, 275 |
| HpyF3I | CTNAG | 1 cut(s) | 244 |
| Hsp92II | CATG | 5 cut(s) | 55, 83, 94, 213, 217 |
| Ksp22I | TGATCA | 1 cut(s) | 142 |
| Kzo9I | GATC | 4 cut(s) | 16, 37, 43, 142 |
| LpnPI | CCDG | 2 cut(s) | 177, 282 |
| MaeIII | GTNAC | 2 cut(s) | 131, 200 |
| MalI | GATC | 4 cut(s) | 18, 39, 45, 144 |
| MboI | GATC | 4 cut(s) | 16, 37, 43, 142 |
| MboII | GAAGA | 1 cut(s) | 136 |
| MluCI | AATT | 2 cut(s) | 30, 147 |
| MlyI | GAGTC | 1 cut(s) | 146 |
| MnlI | CCTC | 3 cut(s) | 94, 122, 292 |
| Mph1103I | ATGCAT | 1 cut(s) | 215 |
| MseI | TTAA | 2 cut(s) | 69, 114 |
| MslI | CAYNNNNRTG | 2 cut(s) | 56, 212 |
| NdeII | GATC | 4 cut(s) | 16, 37, 43, 142 |
| NlaIII | CATG | 5 cut(s) | 55, 83, 94, 213, 217 |
| NmuCI | GTSAC | 1 cut(s) | 131 |
| NsiI | ATGCAT | 1 cut(s) | 215 |
| NspI | RCATGY | 1 cut(s) | 213 |
| PflFI | GACNNNGTC | 1 cut(s) | 58 |
| PleI | GAGTC | 1 cut(s) | 145 |
| PpsI | GAGTC | 1 cut(s) | 145 |
| PpuMI | RGGWCCY | 1 cut(s) | 103 |
| PshBI | ATTAAT | 1 cut(s) | 114 |
| Psp5II | RGGWCCY | 1 cut(s) | 103 |
| PspPI | GGNCC | 1 cut(s) | 103 |
| PspPPI | RGGWCCY | 1 cut(s) | 103 |
| PsyI | GACNNNGTC | 1 cut(s) | 58 |
| RsaI | GTAC | 1 cut(s) | 308 |
| RsaNI | GTAC | 1 cut(s) | 307 |
| RseI | CAYNNNNRTG | 2 cut(s) | 56, 212 |
| SaqAI | TTAA | 2 cut(s) | 69, 114 |
| Sau3AI | GATC | 4 cut(s) | 16, 37, 43, 142 |
| Sau96I | GGNCC | 1 cut(s) | 103 |
| SchI | GAGTC | 1 cut(s) | 146 |
| SetI | ASST | 4 cut(s) | 108, 133, 284, 301 |
| SinI | GGWCC | 1 cut(s) | 103 |
| SmiMI | CAYNNNNRTG | 2 cut(s) | 56, 212 |
| Sse9I | AATT | 2 cut(s) | 30, 147 |
| TasI | AATT | 2 cut(s) | 30, 147 |
| Tru1I | TTAA | 2 cut(s) | 69, 114 |
| Tru9I | TTAA | 2 cut(s) | 69, 114 |
| TseFI | GTSAC | 1 cut(s) | 131 |
| Tsp45I | GTSAC | 1 cut(s) | 131 |
| TspDTI | ATGAA | 3 cut(s) | 107, 183, 230 |
| Tth111I | GACNNNGTC | 1 cut(s) | 58 |
| VpaK11BI | GGWCC | 1 cut(s) | 103 |
| VspI | ATTAAT | 1 cut(s) | 114 |
| XapI | RAATTY | 1 cut(s) | 147 |
| XceI | RCATGY | 1 cut(s) | 213 |
| Zsp2I | ATGCAT | 1 cut(s) | 215 |