transcription regulatory region sequence-specific DNA binding
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 |
|---|---|
| fragaria_vesca | FvH4_1g02960 FvH4_1g18960 |
| rosa_chinensis | RchiOBHm_Chr2g0109981 |
| rosa_laevigata | RLG00000017775 |
| rosa_multiflora | Rmu_sc0001870.1_g000005 Rmu_sc0004650.1_g000002 |
| rosa_roxburghii | Rroxscaffold_2G00133810 |
| rosa_rugosa | Rorug02G0162700 Rorug02G0164900 |
| rosa_samantha | Rh2AG216400 Rh2BG226500 Rh2CG218600 Rh2DG222000 |
| rosa_wichuraiana | Rw2G016720 |
| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AciI | CCGC | 3 cut(s) | 82, 140, 231 |
| AclWI | GGATC | 1 cut(s) | 437 |
| AcoI | YGGCCR | 1 cut(s) | 3 |
| AfaI | GTAC | 4 cut(s) | 173, 367, 541, 568 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 343 |
| AgsI | TTSAA | 4 cut(s) | 97, 210, 494, 501 |
| AluBI | AGCT | 3 cut(s) | 397, 406, 546 |
| AluI | AGCT | 3 cut(s) | 397, 406, 546 |
| Alw21I | GWGCWC | 1 cut(s) | 201 |
| Alw26I | GTCTC | 1 cut(s) | 255 |
| AlwI | GGATC | 1 cut(s) | 437 |
| Ama87I | CYCGRG | 1 cut(s) | 352 |
| AoxI | GGCC | 1 cut(s) | 3 |
| AspLEI | GCGC | 1 cut(s) | 131 |
| AspS9I | GGNCC | 1 cut(s) | 14 |
| AsuHPI | GGTGA | 1 cut(s) | 58 |
| AvaI | CYCGRG | 1 cut(s) | 352 |
| AvaII | GGWCC | 1 cut(s) | 14 |
| BalI | TGGCCA | 1 cut(s) | 5 |
| BanII | GRGCYC | 1 cut(s) | 337 |
| Bbv12I | GWGCWC | 1 cut(s) | 201 |
| BccI | CCATC | 2 cut(s) | 238, 371 |
| BcoDI | GTCTC | 1 cut(s) | 255 |
| BfaI | CTAG | 1 cut(s) | 407 |
| BfmI | CTRYAG | 1 cut(s) | 317 |
| BisI | GCNGC | 2 cut(s) | 82, 231 |
| BlsI | GCNGC | 2 cut(s) | 83, 232 |
| Bme18I | GGWCC | 1 cut(s) | 14 |
| BmeT110I | CYCGRG | 1 cut(s) | 352 |
| BmgT120I | GGNCC | 1 cut(s) | 14 |
| BmsI | GCATC | 1 cut(s) | 55 |
| BpmI | CTGGAG | 1 cut(s) | 237 |
| BpuEI | CTTGAG | 2 cut(s) | 166, 532 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 343 |
| Bse118I | RCCGGY | 1 cut(s) | 233 |
| BseGI | GGATG | 2 cut(s) | 287, 382 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 343 |
| BseMII | CTCAG | 1 cut(s) | 41 |
| BsgI | GTGCAG | 1 cut(s) | 573 |
| BshFI | GGCC | 1 cut(s) | 5 |
| BsiHKAI | GWGCWC | 1 cut(s) | 201 |
| BsiHKCI | CYCGRG | 1 cut(s) | 352 |
| BsiSI | CCGG | 1 cut(s) | 234 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 343 |
| BsmAI | GTCTC | 1 cut(s) | 255 |
| BsnI | GGCC | 1 cut(s) | 5 |
| BsoBI | CYCGRG | 1 cut(s) | 352 |
| Bsp1286I | GDGCHC | 2 cut(s) | 201, 337 |
| Bsp143I | GATC | 3 cut(s) | 30, 39, 429 |
| BspACI | CCGC | 3 cut(s) | 82, 140, 231 |
| BspANI | GGCC | 1 cut(s) | 5 |
| BspCNI | CTCAG | 1 cut(s) | 42 |
| BspPI | GGATC | 1 cut(s) | 437 |
| BspQI | GCTCTTC | 1 cut(s) | 244 |
| BsrFI | RCCGGY | 1 cut(s) | 233 |
| BssAI | RCCGGY | 1 cut(s) | 233 |
| BssMI | GATC | 3 cut(s) | 30, 39, 429 |
| Bst4CI | ACNGT | 2 cut(s) | 506, 591 |
| Bst6I | CTCTTC | 1 cut(s) | 244 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 137 |
| BstC8I | GCNNGC | 3 cut(s) | 59, 228, 235 |
| BstDEI | CTNAG | 2 cut(s) | 27, 50 |
| BstF5I | GGATG | 2 cut(s) | 287, 382 |
| BstHHI | GCGC | 1 cut(s) | 131 |
| BstKTI | GATC | 3 cut(s) | 33, 42, 432 |
| BstMAI | GTCTC | 1 cut(s) | 255 |
| BstMBI | GATC | 3 cut(s) | 30, 39, 429 |
| BstMWI | GCNNNNNNNGC | 2 cut(s) | 137, 403 |
| BstSFI | CTRYAG | 1 cut(s) | 317 |
| BsuRI | GGCC | 1 cut(s) | 5 |
| BtsCI | GGATG | 2 cut(s) | 287, 382 |
| Cac8I | GCNNGC | 3 cut(s) | 59, 228, 235 |
| CfoI | GCGC | 1 cut(s) | 131 |
| Cfr10I | RCCGGY | 1 cut(s) | 233 |
| Cfr13I | GGNCC | 1 cut(s) | 14 |
| Csp6I | GTAC | 4 cut(s) | 172, 366, 540, 567 |
| CviAII | CATG | 4 cut(s) | 7, 193, 272, 382 |
| CviQI | GTAC | 4 cut(s) | 172, 366, 540, 567 |
| DdeI | CTNAG | 2 cut(s) | 27, 50 |
| DpnI | GATC | 3 cut(s) | 32, 41, 431 |
| DpnII | GATC | 3 cut(s) | 30, 39, 429 |
| EaeI | YGGCCR | 1 cut(s) | 3 |
| Eam1104I | CTCTTC | 1 cut(s) | 244 |
| EarI | CTCTTC | 1 cut(s) | 244 |
| Eco24I | GRGCYC | 1 cut(s) | 337 |
| Eco47I | GGWCC | 1 cut(s) | 14 |
| Eco88I | CYCGRG | 1 cut(s) | 352 |
| EcoT38I | GRGCYC | 1 cut(s) | 337 |
| FaeI | CATG | 4 cut(s) | 10, 196, 275, 385 |
| FaiI | YATR | 7 cut(s) | 8, 146, 194, 273, 383, 486, 488 |
| FatI | CATG | 4 cut(s) | 6, 192, 271, 381 |
| Fnu4HI | GCNGC | 2 cut(s) | 82, 231 |
| FokI | GGATG | 2 cut(s) | 274, 389 |
| FriOI | GRGCYC | 1 cut(s) | 337 |
| Fsp4HI | GCNGC | 2 cut(s) | 82, 231 |
| FspBI | CTAG | 1 cut(s) | 407 |
| GlaI | GCGC | 1 cut(s) | 130 |
| GluI | GCNGC | 2 cut(s) | 82, 231 |
| GsuI | CTGGAG | 1 cut(s) | 237 |
| HaeIII | GGCC | 1 cut(s) | 5 |
| HapII | CCGG | 1 cut(s) | 234 |
| HhaI | GCGC | 1 cut(s) | 131 |
| Hin1II | CATG | 4 cut(s) | 10, 196, 275, 385 |
| Hin6I | GCGC | 1 cut(s) | 129 |
| HinP1I | GCGC | 1 cut(s) | 129 |
| HincII | GTYRAC | 1 cut(s) | 360 |
| HindII | GTYRAC | 1 cut(s) | 360 |
| HinfI | GANTC | 4 cut(s) | 248, 434, 497, 572 |
| HpaII | CCGG | 1 cut(s) | 234 |
| HphI | GGTGA | 1 cut(s) | 58 |
| Hpy166II | GTNNAC | 2 cut(s) | 360, 587 |
| Hpy188I | TCNGA | 3 cut(s) | 51, 292, 577 |
| Hpy188III | TCNNGA | 3 cut(s) | 34, 210, 254 |
| Hpy8I | GTNNAC | 2 cut(s) | 360, 587 |
| HpyAV | CCTTC | 2 cut(s) | 79, 419 |
| HpyCH4III | ACNGT | 2 cut(s) | 506, 591 |
| HpyCH4V | TGCA | 4 cut(s) | 305, 463, 554, 610 |
| HpyF10VI | GCNNNNNNNGC | 2 cut(s) | 137, 403 |
| HpyF3I | CTNAG | 2 cut(s) | 27, 50 |
| Hsp92II | CATG | 4 cut(s) | 10, 196, 275, 385 |
| HspAI | GCGC | 1 cut(s) | 129 |
| KroI | GCCGGC | 1 cut(s) | 233 |
| KroNI | GCCGGC | 1 cut(s) | 235 |
| Kzo9I | GATC | 3 cut(s) | 30, 39, 429 |
| LguI | GCTCTTC | 1 cut(s) | 244 |
| LmnI | GCTCC | 2 cut(s) | 196, 223 |
| LpnPI | CCDG | 7 cut(s) | 43, 202, 247, 267, 305, 522, 546 |
| LweI | GCATC | 1 cut(s) | 55 |
| MaeI | CTAG | 1 cut(s) | 407 |
| MaeIII | GTNAC | 1 cut(s) | 64 |
| MalI | GATC | 3 cut(s) | 32, 41, 431 |
| MboI | GATC | 3 cut(s) | 30, 39, 429 |
| MboII | GAAGA | 7 cut(s) | 33, 49, 119, 231, 335, 463, 506 |
| MhlI | GDGCHC | 2 cut(s) | 201, 337 |
| MlsI | TGGCCA | 1 cut(s) | 5 |
| MluCI | AATT | 1 cut(s) | 327 |
| MluNI | TGGCCA | 1 cut(s) | 5 |
| MlyI | GAGTC | 1 cut(s) | 257 |
| MmeI | TCCRAC | 2 cut(s) | 180, 354 |
| MnlI | CCTC | 2 cut(s) | 348, 490 |
| Mox20I | TGGCCA | 1 cut(s) | 5 |
| MroNI | GCCGGC | 1 cut(s) | 233 |
| MscI | TGGCCA | 1 cut(s) | 5 |
| MslI | CAYNNNNRTG | 2 cut(s) | 121, 191 |
| Msp20I | TGGCCA | 1 cut(s) | 5 |
| MspI | CCGG | 1 cut(s) | 234 |
| MwoI | GCNNNNNNNGC | 2 cut(s) | 137, 403 |
| NaeI | GCCGGC | 1 cut(s) | 235 |
| NdeII | GATC | 3 cut(s) | 30, 39, 429 |
| NgoMIV | GCCGGC | 1 cut(s) | 233 |
| NlaIII | CATG | 4 cut(s) | 10, 196, 275, 385 |
| NmeAIII | GCCGAG | 1 cut(s) | 303 |
| NmuCI | GTSAC | 1 cut(s) | 64 |
| PaeR7I | CTCGAG | 1 cut(s) | 352 |
| PciSI | GCTCTTC | 1 cut(s) | 244 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 39 |
| PdiI | GCCGGC | 1 cut(s) | 235 |
| PfeI | GAWTC | 3 cut(s) | 434, 497, 572 |
| PkrI | GCNGC | 2 cut(s) | 83, 232 |
| PleI | GAGTC | 1 cut(s) | 256 |
| PpsI | GAGTC | 1 cut(s) | 256 |
| PspPI | GGNCC | 1 cut(s) | 14 |
| PspXI | VCTCGAGB | 1 cut(s) | 352 |
| RsaI | GTAC | 4 cut(s) | 173, 367, 541, 568 |
| RsaNI | GTAC | 4 cut(s) | 172, 366, 540, 567 |
| RseI | CAYNNNNRTG | 2 cut(s) | 121, 191 |
| SapI | GCTCTTC | 1 cut(s) | 244 |
| SatI | GCNGC | 2 cut(s) | 82, 231 |
| Sau3AI | GATC | 3 cut(s) | 30, 39, 429 |
| Sau96I | GGNCC | 1 cut(s) | 14 |
| SchI | GAGTC | 1 cut(s) | 257 |
| SduI | GDGCHC | 2 cut(s) | 201, 337 |
| SetI | ASST | 6 cut(s) | 16, 71, 359, 399, 408, 548 |
| SfaNI | GCATC | 1 cut(s) | 55 |
| SfcI | CTRYAG | 1 cut(s) | 317 |
| Sfr274I | CTCGAG | 1 cut(s) | 352 |
| SinI | GGWCC | 1 cut(s) | 14 |
| SlaI | CTCGAG | 1 cut(s) | 352 |
| SmiMI | CAYNNNNRTG | 2 cut(s) | 121, 191 |
| SmlI | CTYRAG | 3 cut(s) | 181, 352, 547 |
| SmoI | CTYRAG | 3 cut(s) | 181, 352, 547 |
| Sse9I | AATT | 1 cut(s) | 327 |
| SsiI | CCGC | 3 cut(s) | 82, 140, 231 |
| SspMI | CTAG | 1 cut(s) | 407 |
| TaaI | ACNGT | 2 cut(s) | 506, 591 |
| TaqI | TCGA | 6 cut(s) | 33, 42, 121, 242, 353, 432 |
| TasI | AATT | 1 cut(s) | 327 |
| TatI | WGTACW | 1 cut(s) | 566 |
| TauI | GCSGC | 2 cut(s) | 84, 233 |
| TfiI | GAWTC | 3 cut(s) | 434, 497, 572 |
| TseFI | GTSAC | 1 cut(s) | 64 |
| Tsp45I | GTSAC | 1 cut(s) | 64 |
| TspDTI | ATGAA | 2 cut(s) | 273, 471 |
| TspGWI | ACGGA | 1 cut(s) | 383 |
| VpaK11BI | GGWCC | 1 cut(s) | 14 |
| XhoI | CTCGAG | 1 cut(s) | 352 |
| XspI | CTAG | 1 cut(s) | 407 |