Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked Lys-6-linked may be involved in DNA repair
Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.
| Species | Orthologous Gene IDs |
|---|---|
| prunus_persica | Prupe.2G096200_v2.0.a1 Prupe.6G189400_v2.0.a1 |
| rosa_chinensis | RchiOBHm_Chr4g0396371 |
| rosa_rugosa | Rorug03G0349500 |
| rosa_samantha | Rh4AG067700 Rh4CG073600 |
| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AciI | CCGC | 1 cut(s) | 164 |
| AclWI | GGATC | 3 cut(s) | 4, 112, 124 |
| AcoI | YGGCCR | 1 cut(s) | 3 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 19 |
| AgsI | TTSAA | 3 cut(s) | 182, 201, 236 |
| AjnI | CCWGG | 1 cut(s) | 12 |
| AluBI | AGCT | 1 cut(s) | 70 |
| AluI | AGCT | 1 cut(s) | 70 |
| Alw26I | GTCTC | 1 cut(s) | 143 |
| AlwI | GGATC | 3 cut(s) | 4, 112, 124 |
| AoxI | GGCC | 1 cut(s) | 3 |
| ApeKI | GCWGC | 1 cut(s) | 67 |
| AsuHPI | GGTGA | 2 cut(s) | 161, 267 |
| AsuII | TTCGAA | 1 cut(s) | 209 |
| BalI | TGGCCA | 1 cut(s) | 5 |
| BbsI | GAAGAC | 1 cut(s) | 243 |
| BbvI | GCAGC | 1 cut(s) | 79 |
| BccI | CCATC | 2 cut(s) | 71, 132 |
| BciT130I | CCWGG | 1 cut(s) | 14 |
| BcoDI | GTCTC | 1 cut(s) | 143 |
| BfmI | CTRYAG | 1 cut(s) | 296 |
| BisI | GCNGC | 1 cut(s) | 68 |
| BlsI | GCNGC | 1 cut(s) | 69 |
| Bme1390I | CCNGG | 1 cut(s) | 14 |
| BmrFI | CCNGG | 1 cut(s) | 14 |
| BmsI | GCATC | 2 cut(s) | 36, 275 |
| BpiI | GAAGAC | 1 cut(s) | 243 |
| BplI | GAGNNNNNCTC | 2 cut(s) | 16, 48 |
| Bpu14I | TTCGAA | 1 cut(s) | 209 |
| BpuEI | CTTGAG | 1 cut(s) | 56 |
| Bsa29I | ATCGAT | 1 cut(s) | 116 |
| BsaJI | CCNNGG | 1 cut(s) | 142 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 19 |
| BseBI | CCWGG | 1 cut(s) | 14 |
| BseCI | ATCGAT | 1 cut(s) | 116 |
| BseDI | CCNNGG | 1 cut(s) | 142 |
| BseGI | GGATG | 3 cut(s) | 27, 82, 102 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 19 |
| BseRI | GAGGAG | 1 cut(s) | 159 |
| BseXI | GCAGC | 1 cut(s) | 79 |
| BshFI | GGCC | 1 cut(s) | 5 |
| BshVI | ATCGAT | 1 cut(s) | 116 |
| BsiSI | CCGG | 1 cut(s) | 60 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 19 |
| BsmAI | GTCTC | 1 cut(s) | 143 |
| BsmBI | CGTCTC | 1 cut(s) | 143 |
| BsnI | GGCC | 1 cut(s) | 5 |
| Bsp119I | TTCGAA | 1 cut(s) | 209 |
| Bsp143I | GATC | 3 cut(s) | 9, 117, 129 |
| BspACI | CCGC | 1 cut(s) | 164 |
| BspANI | GGCC | 1 cut(s) | 5 |
| BspDI | ATCGAT | 1 cut(s) | 116 |
| BspPI | GGATC | 3 cut(s) | 4, 112, 124 |
| BspT104I | TTCGAA | 1 cut(s) | 209 |
| BssECI | CCNNGG | 1 cut(s) | 142 |
| BssMI | GATC | 3 cut(s) | 9, 117, 129 |
| Bst2UI | CCWGG | 1 cut(s) | 14 |
| BstBI | TTCGAA | 1 cut(s) | 209 |
| BstC8I | GCNNGC | 1 cut(s) | 264 |
| BstDEI | CTNAG | 1 cut(s) | 172 |
| BstF5I | GGATG | 3 cut(s) | 27, 82, 102 |
| BstKTI | GATC | 3 cut(s) | 12, 120, 132 |
| BstMAI | GTCTC | 1 cut(s) | 143 |
| BstMBI | GATC | 3 cut(s) | 9, 117, 129 |
| BstNI | CCWGG | 1 cut(s) | 14 |
| BstSCI | CCNGG | 1 cut(s) | 12 |
| BstSFI | CTRYAG | 1 cut(s) | 296 |
| BstV1I | GCAGC | 1 cut(s) | 79 |
| BstV2I | GAAGAC | 1 cut(s) | 243 |
| BstX2I | RGATCY | 1 cut(s) | 9 |
| BstYI | RGATCY | 1 cut(s) | 9 |
| Bsu15I | ATCGAT | 1 cut(s) | 116 |
| BsuRI | GGCC | 1 cut(s) | 5 |
| BsuTUI | ATCGAT | 1 cut(s) | 116 |
| BtsCI | GGATG | 3 cut(s) | 27, 82, 102 |
| BtsIMutI | CAGTG | 1 cut(s) | 276 |
| Cac8I | GCNNGC | 1 cut(s) | 264 |
| ClaI | ATCGAT | 1 cut(s) | 116 |
| CspCI | CAANNNNNGTGG | 1 cut(s) | 267 |
| CviAII | CATG | 1 cut(s) | 224 |
| CviJI | RGCY | 6 cut(s) | 5, 49, 70, 81, 185, 262 |
| CviKI_1 | RGCY | 6 cut(s) | 5, 49, 70, 81, 185, 262 |
| DdeI | CTNAG | 1 cut(s) | 172 |
| DpnI | GATC | 3 cut(s) | 11, 119, 131 |
| DpnII | GATC | 3 cut(s) | 9, 117, 129 |
| EaeI | YGGCCR | 1 cut(s) | 3 |
| EcoRII | CCWGG | 1 cut(s) | 12 |
| Esp3I | CGTCTC | 1 cut(s) | 143 |
| FaeI | CATG | 1 cut(s) | 227 |
| FaiI | YATR | 5 cut(s) | 37, 156, 225, 242, 298 |
| FatI | CATG | 1 cut(s) | 223 |
| FauI | CCCGC | 1 cut(s) | 157 |
| Fnu4HI | GCNGC | 1 cut(s) | 68 |
| FokI | GGATG | 3 cut(s) | 14, 89, 89 |
| Fsp4HI | GCNGC | 1 cut(s) | 68 |
| GluI | GCNGC | 1 cut(s) | 68 |
| HaeIII | GGCC | 1 cut(s) | 5 |
| HapII | CCGG | 1 cut(s) | 60 |
| Hin1II | CATG | 1 cut(s) | 227 |
| HinfI | GANTC | 2 cut(s) | 113, 197 |
| HpaII | CCGG | 1 cut(s) | 60 |
| HphI | GGTGA | 2 cut(s) | 161, 267 |
| Hpy188I | TCNGA | 2 cut(s) | 129, 143 |
| Hpy188III | TCNNGA | 1 cut(s) | 201 |
| Hpy99I | CGWCG | 1 cut(s) | 258 |
| HpyAV | CCTTC | 2 cut(s) | 143, 205 |
| HpyCH4IV | ACGT | 1 cut(s) | 256 |
| HpyCH4V | TGCA | 1 cut(s) | 266 |
| HpyF3I | CTNAG | 1 cut(s) | 172 |
| HpySE526I | ACGT | 1 cut(s) | 256 |
| Hsp92II | CATG | 1 cut(s) | 227 |
| Kzo9I | GATC | 3 cut(s) | 9, 117, 129 |
| LpnPI | CCDG | 3 cut(s) | 26, 73, 296 |
| Lsp1109I | GCAGC | 1 cut(s) | 79 |
| LweI | GCATC | 2 cut(s) | 36, 275 |
| MaeII | ACGT | 1 cut(s) | 256 |
| MaeIII | GTNAC | 4 cut(s) | 217, 248, 273, 291 |
| MalI | GATC | 3 cut(s) | 11, 119, 131 |
| MboI | GATC | 3 cut(s) | 9, 117, 129 |
| MboII | GAAGA | 2 cut(s) | 46, 248 |
| MflI | RGATCY | 1 cut(s) | 9 |
| MlsI | TGGCCA | 1 cut(s) | 5 |
| MluNI | TGGCCA | 1 cut(s) | 5 |
| MnlI | CCTC | 5 cut(s) | 39, 42, 131, 137, 140 |
| Mox20I | TGGCCA | 1 cut(s) | 5 |
| MscI | TGGCCA | 1 cut(s) | 5 |
| Msp20I | TGGCCA | 1 cut(s) | 5 |
| MspI | CCGG | 1 cut(s) | 60 |
| MspR9I | CCNGG | 1 cut(s) | 14 |
| MvaI | CCWGG | 1 cut(s) | 14 |
| NdeII | GATC | 3 cut(s) | 9, 117, 129 |
| NlaIII | CATG | 1 cut(s) | 227 |
| NmuCI | GTSAC | 2 cut(s) | 273, 291 |
| NspV | TTCGAA | 1 cut(s) | 209 |
| PfeI | GAWTC | 2 cut(s) | 113, 197 |
| PfoI | TCCNGGA | 1 cut(s) | 12 |
| PkrI | GCNGC | 1 cut(s) | 69 |
| Psp6I | CCWGG | 1 cut(s) | 12 |
| PspGI | CCWGG | 1 cut(s) | 12 |
| PsuI | RGATCY | 1 cut(s) | 9 |
| SatI | GCNGC | 1 cut(s) | 68 |
| Sau3AI | GATC | 3 cut(s) | 9, 117, 129 |
| ScrFI | CCNGG | 1 cut(s) | 14 |
| SetI | ASST | 5 cut(s) | 72, 90, 151, 216, 259 |
| SfaNI | GCATC | 2 cut(s) | 36, 275 |
| SfcI | CTRYAG | 1 cut(s) | 296 |
| SfuI | TTCGAA | 1 cut(s) | 209 |
| SmlI | CTYRAG | 1 cut(s) | 71 |
| SmoI | CTYRAG | 1 cut(s) | 71 |
| SsiI | CCGC | 1 cut(s) | 164 |
| StyD4I | CCNGG | 1 cut(s) | 12 |
| TaiI | ACGT | 1 cut(s) | 259 |
| TaqI | TCGA | 2 cut(s) | 116, 209 |
| TfiI | GAWTC | 2 cut(s) | 113, 197 |
| TscAI | CASTG | 1 cut(s) | 276 |
| TseFI | GTSAC | 2 cut(s) | 273, 291 |
| TseI | GCWGC | 1 cut(s) | 67 |
| Tsp45I | GTSAC | 2 cut(s) | 273, 291 |
| TspRI | CASTG | 1 cut(s) | 276 |