Sigma factors are initiation factors that promote the attachment of plastid-encoded RNA polymerase (PEP) to specific initiation sites and are then released
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| Species | Orthologous Gene IDs |
|---|---|
| arabidopsis_thaliana | AT1G08540 |
| fragaria_vesca | FvH4_1g29160 FvH4_1g29160 |
| malus_domestica | MD12G1111900.v1.1 MD14G1100900.v1.1 |
| prunus_persica | Prupe.7G021900_v2.0.a1 Prupe.7G021900_v2.0.a1 Prupe.7G021900_v2.0.a1 Prupe.7G021900_v2.0.a1 |
| pyrus_communis | pycom12g09170 pycom14g08810 |
| rosa_chinensis | RchiOBHm_Chr3g0494351 RchiOBHm_Chr3g0494481 |
| rosa_laevigata | RLG00000022672 |
| rosa_multiflora | Rmu_sc0000152.1_g000008 |
| rosa_roxburghii | Rroxscaffold_6G00391100 |
| rosa_rugosa | Rorug03G0265600 |
| rosa_samantha | Rh3BG350900 Rh3CG347600 Rh3DG350200 |
| rosa_wichuraiana | Rw3G027560 |
| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AccB7I | CCANNNNNTGG | 1 cut(s) | 119 |
| AccI | GTMKAC | 1 cut(s) | 424 |
| AciI | CCGC | 3 cut(s) | 174, 537, 563 |
| AclWI | GGATC | 2 cut(s) | 281, 893 |
| AcoI | YGGCCR | 1 cut(s) | 198 |
| AcsI | RAATTY | 3 cut(s) | 469, 719, 1250 |
| AcuI | CTGAAG | 2 cut(s) | 590, 993 |
| AdeI | CACNNNGTG | 1 cut(s) | 1366 |
| AfaI | GTAC | 2 cut(s) | 879, 1409 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 119 |
| AgsI | TTSAA | 7 cut(s) | 256, 336, 420, 674, 725, 1202, 1263 |
| AjnI | CCWGG | 1 cut(s) | 981 |
| AleI | CACNNNNGTG | 1 cut(s) | 1294 |
| Alw26I | GTCTC | 1 cut(s) | 1445 |
| AlwI | GGATC | 2 cut(s) | 281, 893 |
| AoxI | GGCC | 2 cut(s) | 198, 1228 |
| ApeKI | GCWGC | 9 cut(s) | 530, 533, 806, 818, 821, 1006, 1061, 1064, 1067 |
| ApoI | RAATTY | 3 cut(s) | 469, 719, 1250 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 498 |
| AspLEI | GCGC | 1 cut(s) | 173 |
| AspS9I | GGNCC | 1 cut(s) | 222 |
| AsuC2I | CCSGG | 1 cut(s) | 302 |
| AsuHPI | GGTGA | 2 cut(s) | 88, 119 |
| AsuII | TTCGAA | 1 cut(s) | 1315 |
| AvaII | GGWCC | 1 cut(s) | 222 |
| AxyI | CCTNAGG | 1 cut(s) | 218 |
| BaeGI | GKGCMC | 1 cut(s) | 307 |
| BalI | TGGCCA | 1 cut(s) | 200 |
| BanII | GRGCYC | 1 cut(s) | 127 |
| BauI | CACGAG | 1 cut(s) | 505 |
| BbsI | GAAGAC | 2 cut(s) | 1091, 1429 |
| BbvI | GCAGC | 9 cut(s) | 517, 520, 805, 808, 818, 993, 1048, 1054, 1076 |
| BccI | CCATC | 1 cut(s) | 592 |
| BceAI | ACGGC | 1 cut(s) | 29 |
| BciT130I | CCWGG | 1 cut(s) | 983 |
| BclI | TGATCA | 2 cut(s) | 1078, 1134 |
| BcnI | CCSGG | 1 cut(s) | 302 |
| BcoDI | GTCTC | 1 cut(s) | 1445 |
| BfaI | CTAG | 4 cut(s) | 282, 618, 792, 858 |
| BfmI | CTRYAG | 5 cut(s) | 354, 489, 731, 1062, 1068 |
| BfoI | RGCGCY | 1 cut(s) | 174 |
| BglII | AGATCT | 1 cut(s) | 1204 |
| Bme1390I | CCNGG | 2 cut(s) | 302, 983 |
| Bme18I | GGWCC | 1 cut(s) | 222 |
| BmgT120I | GGNCC | 1 cut(s) | 222 |
| BmiI | GGNNCC | 1 cut(s) | 224 |
| BmrFI | CCNGG | 2 cut(s) | 302, 983 |
| BmrI | ACTGGG | 1 cut(s) | 107 |
| BmuI | ACTGGG | 1 cut(s) | 107 |
| BpiI | GAAGAC | 2 cut(s) | 1091, 1429 |
| Bpu14I | TTCGAA | 1 cut(s) | 1315 |
| BpuMI | CCSGG | 1 cut(s) | 302 |
| BsaJI | CCNNGG | 3 cut(s) | 428, 633, 747 |
| BsaXI | ACNNNNNCTCC | 4 cut(s) | 93, 123, 177, 207 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 119 |
| Bse1I | ACTGG | 4 cut(s) | 113, 1002, 1298, 1333 |
| Bse21I | CCTNAGG | 1 cut(s) | 218 |
| Bse3DI | GCAATG | 3 cut(s) | 326, 902, 1047 |
| BseBI | CCWGG | 1 cut(s) | 983 |
| BseDI | CCNNGG | 3 cut(s) | 428, 633, 747 |
| BseGI | GGATG | 6 cut(s) | 26, 35, 589, 1197, 1226, 1426 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 119 |
| BseMI | GCAATG | 3 cut(s) | 326, 902, 1047 |
| BseMII | CTCAG | 3 cut(s) | 232, 391, 453 |
| BseNI | ACTGG | 4 cut(s) | 113, 1002, 1298, 1333 |
| BseRI | GAGGAG | 4 cut(s) | 181, 201, 204, 1028 |
| BseSI | GKGCMC | 1 cut(s) | 307 |
| BseXI | GCAGC | 9 cut(s) | 517, 520, 805, 808, 818, 993, 1048, 1054, 1076 |
| BseYI | CCCAGC | 2 cut(s) | 130, 1187 |
| BsgI | GTGCAG | 2 cut(s) | 1232, 1263 |
| BshFI | GGCC | 2 cut(s) | 200, 1230 |
| BsiSI | CCGG | 1 cut(s) | 301 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 119 |
| BsmAI | GTCTC | 1 cut(s) | 1445 |
| BsmI | GAATGC | 1 cut(s) | 331 |
| BsnI | GGCC | 2 cut(s) | 200, 1230 |
| Bsp119I | TTCGAA | 1 cut(s) | 1315 |
| Bsp1286I | GDGCHC | 2 cut(s) | 127, 307 |
| Bsp1407I | TGTACA | 1 cut(s) | 1407 |
| Bsp143I | GATC | 7 cut(s) | 286, 661, 898, 917, 1078, 1134, 1204 |
| Bsp19I | CCATGG | 1 cut(s) | 633 |
| BspACI | CCGC | 3 cut(s) | 174, 537, 563 |
| BspANI | GGCC | 2 cut(s) | 200, 1230 |
| BspCNI | CTCAG | 3 cut(s) | 231, 390, 454 |
| BspLI | GGNNCC | 1 cut(s) | 224 |
| BspMAI | CTGCAG | 3 cut(s) | 735, 1066, 1072 |
| BspPI | GGATC | 2 cut(s) | 281, 893 |
| BspT104I | TTCGAA | 1 cut(s) | 1315 |
| BsrDI | GCAATG | 3 cut(s) | 326, 902, 1047 |
| BsrGI | TGTACA | 1 cut(s) | 1407 |
| BsrI | ACTGG | 4 cut(s) | 113, 1002, 1298, 1333 |
| BssECI | CCNNGG | 3 cut(s) | 428, 633, 747 |
| BssMI | GATC | 7 cut(s) | 286, 661, 898, 917, 1078, 1134, 1204 |
| BssSI | CACGAG | 1 cut(s) | 505 |
| BssT1I | CCWWGG | 2 cut(s) | 633, 747 |
| Bst2BI | CACGAG | 1 cut(s) | 505 |
| Bst2UI | CCWGG | 1 cut(s) | 983 |
| Bst4CI | ACNGT | 6 cut(s) | 214, 358, 387, 429, 1407, 1412 |
| Bst6I | CTCTTC | 3 cut(s) | 158, 504, 507 |
| BstAUI | TGTACA | 1 cut(s) | 1407 |
| BstBI | TTCGAA | 1 cut(s) | 1315 |
| BstC8I | GCNNGC | 2 cut(s) | 941, 1020 |
| BstDEI | CTNAG | 3 cut(s) | 218, 377, 462 |
| BstDSI | CCRYGG | 2 cut(s) | 428, 633 |
| BstF5I | GGATG | 6 cut(s) | 26, 35, 589, 1197, 1226, 1426 |
| BstH2I | RGCGCY | 1 cut(s) | 174 |
| BstHHI | GCGC | 1 cut(s) | 173 |
| BstKTI | GATC | 7 cut(s) | 289, 664, 901, 920, 1081, 1137, 1207 |
| BstMAI | GTCTC | 1 cut(s) | 1445 |
| BstMBI | GATC | 7 cut(s) | 286, 661, 898, 917, 1078, 1134, 1204 |
| BstNI | CCWGG | 1 cut(s) | 983 |
| BstSCI | CCNGG | 2 cut(s) | 300, 981 |
| BstSFI | CTRYAG | 5 cut(s) | 354, 489, 731, 1062, 1068 |
| BstSLI | GKGCMC | 1 cut(s) | 307 |
| BstV1I | GCAGC | 9 cut(s) | 517, 520, 805, 808, 818, 993, 1048, 1054, 1076 |
| BstV2I | GAAGAC | 2 cut(s) | 1091, 1429 |
| BstX2I | RGATCY | 2 cut(s) | 286, 1204 |
| BstYI | RGATCY | 2 cut(s) | 286, 1204 |
| Bsu36I | CCTNAGG | 1 cut(s) | 218 |
| BsuRI | GGCC | 2 cut(s) | 200, 1230 |
| BtgI | CCRYGG | 2 cut(s) | 428, 633 |
| BtsCI | GGATG | 6 cut(s) | 26, 35, 589, 1197, 1226, 1426 |
| BtsIMutI | CAGTG | 2 cut(s) | 363, 1291 |
| Cac8I | GCNNGC | 2 cut(s) | 941, 1020 |
| CfoI | GCGC | 1 cut(s) | 173 |
| Cfr13I | GGNCC | 1 cut(s) | 222 |
| CseI | GACGC | 1 cut(s) | 1265 |
| Csp6I | GTAC | 2 cut(s) | 878, 1408 |
| CspCI | CAANNNNNGTGG | 2 cut(s) | 567, 602 |
| CviAII | CATG | 4 cut(s) | 196, 634, 1010, 1363 |
| CviQI | GTAC | 2 cut(s) | 878, 1408 |
| DdeI | CTNAG | 3 cut(s) | 218, 377, 462 |
| DpnI | GATC | 7 cut(s) | 288, 663, 900, 919, 1080, 1136, 1206 |
| DpnII | GATC | 7 cut(s) | 286, 661, 898, 917, 1078, 1134, 1204 |
| DraI | TTTAAA | 1 cut(s) | 1416 |
| DraIII | CACNNNGTG | 1 cut(s) | 1366 |
| EaeI | YGGCCR | 1 cut(s) | 198 |
| Eam1104I | CTCTTC | 3 cut(s) | 158, 504, 507 |
| EarI | CTCTTC | 3 cut(s) | 158, 504, 507 |
| Eco130I | CCWWGG | 2 cut(s) | 633, 747 |
| Eco147I | AGGCCT | 1 cut(s) | 1230 |
| Eco24I | GRGCYC | 1 cut(s) | 127 |
| Eco47I | GGWCC | 1 cut(s) | 222 |
| Eco57I | CTGAAG | 2 cut(s) | 590, 993 |
| Eco81I | CCTNAGG | 1 cut(s) | 218 |
| EcoO109I | RGGNCCY | 1 cut(s) | 222 |
| EcoRII | CCWGG | 1 cut(s) | 981 |
| EcoT14I | CCWWGG | 2 cut(s) | 633, 747 |
| EcoT38I | GRGCYC | 1 cut(s) | 127 |
| ErhI | CCWWGG | 2 cut(s) | 633, 747 |
| FaeI | CATG | 4 cut(s) | 199, 637, 1013, 1366 |
| FatI | CATG | 4 cut(s) | 195, 633, 1009, 1362 |
| FbaI | TGATCA | 2 cut(s) | 1078, 1134 |
| FblI | GTMKAC | 1 cut(s) | 424 |
| FokI | GGATG | 6 cut(s) | 13, 22, 596, 1204, 1233, 1413 |
| FriOI | GRGCYC | 1 cut(s) | 127 |
| FspBI | CTAG | 4 cut(s) | 282, 618, 792, 858 |
| GlaI | GCGC | 1 cut(s) | 172 |
| GsaI | CCCAGC | 2 cut(s) | 134, 1191 |
| HaeII | RGCGCY | 1 cut(s) | 174 |
| HaeIII | GGCC | 2 cut(s) | 200, 1230 |
| HapII | CCGG | 1 cut(s) | 301 |
| HgaI | GACGC | 1 cut(s) | 1265 |
| HhaI | GCGC | 1 cut(s) | 173 |
| Hin1II | CATG | 4 cut(s) | 199, 637, 1013, 1366 |
| Hin6I | GCGC | 1 cut(s) | 171 |
| HinP1I | GCGC | 1 cut(s) | 171 |
| HinfI | GANTC | 6 cut(s) | 51, 192, 407, 769, 978, 1195 |
| HpaII | CCGG | 1 cut(s) | 301 |
| HphI | GGTGA | 2 cut(s) | 88, 119 |
| Hpy166II | GTNNAC | 3 cut(s) | 425, 432, 1105 |
| Hpy188I | TCNGA | 8 cut(s) | 380, 406, 459, 570, 898, 973, 1083, 1330 |
| Hpy188III | TCNNGA | 6 cut(s) | 220, 505, 618, 1138, 1202, 1338 |
| Hpy8I | GTNNAC | 3 cut(s) | 425, 432, 1105 |
| HpyAV | CCTTC | 5 cut(s) | 86, 565, 781, 968, 1211 |
| HpyCH4III | ACNGT | 6 cut(s) | 214, 358, 387, 429, 1407, 1412 |
| HpyF3I | CTNAG | 3 cut(s) | 218, 377, 462 |
| Hsp92II | CATG | 4 cut(s) | 199, 637, 1013, 1366 |
| HspAI | GCGC | 1 cut(s) | 171 |
| Ksp22I | TGATCA | 2 cut(s) | 1078, 1134 |
| Kzo9I | GATC | 7 cut(s) | 286, 661, 898, 917, 1078, 1134, 1204 |
| LmnI | GCTCC | 8 cut(s) | 168, 476, 626, 638, 703, 736, 1015, 1184 |
| Lsp1109I | GCAGC | 9 cut(s) | 517, 520, 805, 808, 818, 993, 1048, 1054, 1076 |
| MaeI | CTAG | 4 cut(s) | 282, 618, 792, 858 |
| MaeIII | GTNAC | 1 cut(s) | 547 |
| MalI | GATC | 7 cut(s) | 288, 663, 900, 919, 1080, 1136, 1206 |
| MboI | GATC | 7 cut(s) | 286, 661, 898, 917, 1078, 1134, 1204 |
| MfeI | CAATTG | 1 cut(s) | 1164 |
| MflI | RGATCY | 2 cut(s) | 286, 1204 |
| MhlI | GDGCHC | 2 cut(s) | 127, 307 |
| MlsI | TGGCCA | 1 cut(s) | 200 |
| MluNI | TGGCCA | 1 cut(s) | 200 |
| MlyI | GAGTC | 2 cut(s) | 201, 778 |
| MmeI | TCCRAC | 2 cut(s) | 28, 672 |
| Mox20I | TGGCCA | 1 cut(s) | 200 |
| MroXI | GAANNNNTTC | 1 cut(s) | 498 |
| MscI | TGGCCA | 1 cut(s) | 200 |
| MseI | TTAA | 4 cut(s) | 399, 1272, 1302, 1415 |
| MslI | CAYNNNNRTG | 3 cut(s) | 1027, 1294, 1431 |
| Msp20I | TGGCCA | 1 cut(s) | 200 |
| MspA1I | CMGCKG | 1 cut(s) | 1067 |
| MspI | CCGG | 1 cut(s) | 301 |
| MspR9I | CCNGG | 2 cut(s) | 302, 983 |
| MunI | CAATTG | 1 cut(s) | 1164 |
| Mva1269I | GAATGC | 1 cut(s) | 331 |
| MvaI | CCWGG | 1 cut(s) | 983 |
| NciI | CCSGG | 1 cut(s) | 302 |
| NcoI | CCATGG | 1 cut(s) | 633 |
| NdeII | GATC | 7 cut(s) | 286, 661, 898, 917, 1078, 1134, 1204 |
| NlaIII | CATG | 4 cut(s) | 199, 637, 1013, 1366 |
| NlaIV | GGNNCC | 1 cut(s) | 224 |
| NmuCI | GTSAC | 1 cut(s) | 547 |
| NspV | TTCGAA | 1 cut(s) | 1315 |
| OliI | CACNNNNGTG | 1 cut(s) | 1294 |
| PceI | AGGCCT | 1 cut(s) | 1230 |
| PctI | GAATGC | 1 cut(s) | 331 |
| PdmI | GAANNNNTTC | 1 cut(s) | 498 |
| PfeI | GAWTC | 4 cut(s) | 51, 407, 978, 1195 |
| PflMI | CCANNNNNTGG | 1 cut(s) | 119 |
| PfoI | TCCNGGA | 1 cut(s) | 981 |
| PleI | GAGTC | 2 cut(s) | 200, 777 |
| PpsI | GAGTC | 2 cut(s) | 200, 777 |
| PpuMI | RGGWCCY | 1 cut(s) | 222 |
| Psp5II | RGGWCCY | 1 cut(s) | 222 |
| Psp6I | CCWGG | 1 cut(s) | 981 |
| PspFI | CCCAGC | 2 cut(s) | 130, 1187 |
| PspGI | CCWGG | 1 cut(s) | 981 |
| PspN4I | GGNNCC | 1 cut(s) | 224 |
| PspPI | GGNCC | 1 cut(s) | 222 |
| PspPPI | RGGWCCY | 1 cut(s) | 222 |
| PstI | CTGCAG | 3 cut(s) | 735, 1066, 1072 |
| PsuI | RGATCY | 2 cut(s) | 286, 1204 |
| PvuII | CAGCTG | 1 cut(s) | 1067 |
| RsaI | GTAC | 2 cut(s) | 879, 1409 |
| RsaNI | GTAC | 2 cut(s) | 878, 1408 |
| RseI | CAYNNNNRTG | 3 cut(s) | 1027, 1294, 1431 |
| SaqAI | TTAA | 4 cut(s) | 399, 1272, 1302, 1415 |
| Sau3AI | GATC | 7 cut(s) | 286, 661, 898, 917, 1078, 1134, 1204 |
| Sau96I | GGNCC | 1 cut(s) | 222 |
| SchI | GAGTC | 2 cut(s) | 201, 778 |
| ScrFI | CCNGG | 2 cut(s) | 302, 983 |
| SduI | GDGCHC | 2 cut(s) | 127, 307 |
| SfcI | CTRYAG | 5 cut(s) | 354, 489, 731, 1062, 1068 |
| SfuI | TTCGAA | 1 cut(s) | 1315 |
| SinI | GGWCC | 1 cut(s) | 222 |
| SmiMI | CAYNNNNRTG | 3 cut(s) | 1027, 1294, 1431 |
| SseBI | AGGCCT | 1 cut(s) | 1230 |
| SsiI | CCGC | 3 cut(s) | 174, 537, 563 |
| SspMI | CTAG | 4 cut(s) | 282, 618, 792, 858 |
| StuI | AGGCCT | 1 cut(s) | 1230 |
| StyD4I | CCNGG | 2 cut(s) | 300, 981 |
| StyI | CCWWGG | 2 cut(s) | 633, 747 |
| TaaI | ACNGT | 6 cut(s) | 214, 358, 387, 429, 1407, 1412 |
| TaqI | TCGA | 4 cut(s) | 767, 1225, 1315, 1466 |
| TatI | WGTACW | 1 cut(s) | 1407 |
| TauI | GCSGC | 3 cut(s) | 176, 539, 566 |
| TfiI | GAWTC | 4 cut(s) | 51, 407, 978, 1195 |
| Tru1I | TTAA | 4 cut(s) | 399, 1272, 1302, 1415 |
| Tru9I | TTAA | 4 cut(s) | 399, 1272, 1302, 1415 |
| TscAI | CASTG | 2 cut(s) | 363, 1298 |
| TseFI | GTSAC | 1 cut(s) | 547 |
| TseI | GCWGC | 9 cut(s) | 530, 533, 806, 818, 821, 1006, 1061, 1064, 1067 |
| Tsp45I | GTSAC | 1 cut(s) | 547 |
| TspDTI | ATGAA | 7 cut(s) | 9, 261, 658, 729, 1208, 1452, 1484 |
| TspGWI | ACGGA | 3 cut(s) | 28, 794, 826 |
| TspRI | CASTG | 2 cut(s) | 363, 1298 |
| Van91I | CCANNNNNTGG | 1 cut(s) | 119 |
| VpaK11BI | GGWCC | 1 cut(s) | 222 |
| XapI | RAATTY | 3 cut(s) | 469, 719, 1250 |
| XbaI | TCTAGA | 1 cut(s) | 617 |
| XmiI | GTMKAC | 1 cut(s) | 424 |
| XmnI | GAANNNNTTC | 1 cut(s) | 498 |
| XspI | CTAG | 4 cut(s) | 282, 618, 792, 858 |