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) |
|---|---|---|---|
| AarI | CACCTGC | 1 cut(s) | 1669 |
| Acc16I | TGCGCA | 1 cut(s) | 229 |
| Acc36I | ACCTGC | 1 cut(s) | 1669 |
| AccI | GTMKAC | 1 cut(s) | 900 |
| AciI | CCGC | 3 cut(s) | 113, 1044, 1074 |
| AclWI | GGATC | 6 cut(s) | 681, 905, 1035, 1224, 1319, 1577 |
| AcsI | RAATTY | 3 cut(s) | 553, 731, 1262 |
| AcuI | CTGAAG | 5 cut(s) | 486, 515, 1196, 1623, 1823 |
| AcyI | GRCGYC | 1 cut(s) | 48 |
| AdeI | CACNNNGTG | 1 cut(s) | 1378 |
| AfaI | GTAC | 1 cut(s) | 1650 |
| AgsI | TTSAA | 7 cut(s) | 261, 686, 737, 864, 977, 1275, 1781 |
| AjnI | CCWGG | 2 cut(s) | 353, 1020 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 1622, 1654 |
| Alw26I | GTCTC | 2 cut(s) | 1338, 1664 |
| AlwI | GGATC | 6 cut(s) | 681, 905, 1035, 1224, 1319, 1577 |
| AlwNI | CAGNNNCTG | 4 cut(s) | 225, 458, 610, 1586 |
| Ama87I | CYCGRG | 1 cut(s) | 1529 |
| AoxI | GGCC | 3 cut(s) | 376, 1071, 1240 |
| ApoI | RAATTY | 3 cut(s) | 553, 731, 1262 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 1308, 1340 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 423 |
| AspLEI | GCGC | 1 cut(s) | 230 |
| AspS9I | GGNCC | 3 cut(s) | 377, 576, 1071 |
| AsuHPI | GGTGA | 3 cut(s) | 88, 151, 1693 |
| AvaI | CYCGRG | 1 cut(s) | 1529 |
| AvaII | GGWCC | 1 cut(s) | 576 |
| BanII | GRGCYC | 1 cut(s) | 604 |
| BbsI | GAAGAC | 4 cut(s) | 1103, 1441, 1611, 1727 |
| BccI | CCATC | 3 cut(s) | 1683, 1696, 1703 |
| BceAI | ACGGC | 1 cut(s) | 170 |
| BciT130I | CCWGG | 2 cut(s) | 355, 1022 |
| BclI | TGATCA | 3 cut(s) | 175, 1342, 1683 |
| BcoDI | GTCTC | 2 cut(s) | 1338, 1664 |
| BfaI | CTAG | 5 cut(s) | 207, 246, 948, 1010, 1521 |
| BfmI | CTRYAG | 2 cut(s) | 414, 743 |
| BfuAI | ACCTGC | 1 cut(s) | 1669 |
| BglII | AGATCT | 1 cut(s) | 1523 |
| BlpI | GCTNAGC | 1 cut(s) | 603 |
| Bme1390I | CCNGG | 2 cut(s) | 355, 1022 |
| Bme18I | GGWCC | 1 cut(s) | 576 |
| BmeT110I | CYCGRG | 1 cut(s) | 1529 |
| BmgT120I | GGNCC | 3 cut(s) | 377, 576, 1071 |
| BmiI | GGNNCC | 2 cut(s) | 577, 717 |
| BmrFI | CCNGG | 2 cut(s) | 355, 1022 |
| BmrI | ACTGGG | 1 cut(s) | 607 |
| BmsI | GCATC | 4 cut(s) | 616, 659, 1031, 1258 |
| BmuI | ACTGGG | 1 cut(s) | 607 |
| BpiI | GAAGAC | 4 cut(s) | 1103, 1441, 1611, 1727 |
| BpmI | CTGGAG | 2 cut(s) | 546, 1004 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 603 |
| BpuEI | CTTGAG | 1 cut(s) | 946 |
| Bsa29I | ATCGAT | 1 cut(s) | 1175 |
| BsaHI | GRCGYC | 1 cut(s) | 48 |
| BsaJI | CCNNGG | 3 cut(s) | 186, 353, 645 |
| BsaWI | WCCGGW | 1 cut(s) | 365 |
| Bse1I | ACTGG | 7 cut(s) | 563, 579, 602, 669, 837, 1310, 1656 |
| Bse3DI | GCAATG | 3 cut(s) | 180, 914, 1724 |
| BseBI | CCWGG | 2 cut(s) | 355, 1022 |
| BseCI | ATCGAT | 1 cut(s) | 1175 |
| BseDI | CCNNGG | 3 cut(s) | 186, 353, 645 |
| BseGI | GGATG | 5 cut(s) | 514, 1438, 1707, 1714, 1722 |
| BseMI | GCAATG | 3 cut(s) | 180, 914, 1724 |
| BseMII | CTCAG | 4 cut(s) | 378, 617, 620, 1064 |
| BseNI | ACTGG | 7 cut(s) | 563, 579, 602, 669, 837, 1310, 1656 |
| BseRI | GAGGAG | 1 cut(s) | 311 |
| BsgI | GTGCAG | 3 cut(s) | 645, 1244, 1275 |
| BshFI | GGCC | 3 cut(s) | 378, 1073, 1242 |
| BshVI | ATCGAT | 1 cut(s) | 1175 |
| BsiHKCI | CYCGRG | 1 cut(s) | 1529 |
| BsiSI | CCGG | 1 cut(s) | 366 |
| BslFI | GGGAC | 1 cut(s) | 589 |
| BsmAI | GTCTC | 2 cut(s) | 1338, 1664 |
| BsmFI | GGGAC | 1 cut(s) | 589 |
| BsmI | GAATGC | 1 cut(s) | 1790 |
| BsnI | GGCC | 3 cut(s) | 378, 1073, 1242 |
| BsoBI | CYCGRG | 1 cut(s) | 1529 |
| Bsp1286I | GDGCHC | 1 cut(s) | 604 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 603 |
| Bsp19I | CCATGG | 1 cut(s) | 645 |
| BspACI | CCGC | 3 cut(s) | 113, 1044, 1074 |
| BspANI | GGCC | 3 cut(s) | 378, 1073, 1242 |
| BspCNI | CTCAG | 4 cut(s) | 379, 616, 621, 1063 |
| BspDI | ATCGAT | 1 cut(s) | 1175 |
| BspLI | GGNNCC | 2 cut(s) | 577, 717 |
| BspMAI | CTGCAG | 1 cut(s) | 747 |
| BspMI | ACCTGC | 1 cut(s) | 1669 |
| BspPI | GGATC | 6 cut(s) | 681, 905, 1035, 1224, 1319, 1577 |
| BsrDI | GCAATG | 3 cut(s) | 180, 914, 1724 |
| BsrI | ACTGG | 7 cut(s) | 563, 579, 602, 669, 837, 1310, 1656 |
| BssECI | CCNNGG | 3 cut(s) | 186, 353, 645 |
| BssNI | GRCGYC | 1 cut(s) | 48 |
| BssT1I | CCWWGG | 1 cut(s) | 645 |
| Bst2UI | CCWGG | 2 cut(s) | 355, 1022 |
| Bst4CI | ACNGT | 3 cut(s) | 322, 764, 1124 |
| Bst6I | CTCTTC | 4 cut(s) | 70, 76, 432, 1478 |
| BstACI | GRCGYC | 1 cut(s) | 48 |
| BstAPI | GCANNNNNTGC | 2 cut(s) | 458, 1840 |
| BstC8I | GCNNGC | 2 cut(s) | 882, 1491 |
| BstDEI | CTNAG | 4 cut(s) | 387, 603, 629, 1050 |
| BstDSI | CCRYGG | 2 cut(s) | 186, 645 |
| BstF5I | GGATG | 5 cut(s) | 514, 1438, 1707, 1714, 1722 |
| BstHHI | GCGC | 1 cut(s) | 230 |
| BstMAI | GTCTC | 2 cut(s) | 1338, 1664 |
| BstNI | CCWGG | 2 cut(s) | 355, 1022 |
| BstSCI | CCNGG | 2 cut(s) | 353, 1020 |
| BstSFI | CTRYAG | 2 cut(s) | 414, 743 |
| BstV2I | GAAGAC | 4 cut(s) | 1103, 1441, 1611, 1727 |
| BstX2I | RGATCY | 4 cut(s) | 1027, 1216, 1523, 1582 |
| BstYI | RGATCY | 4 cut(s) | 1027, 1216, 1523, 1582 |
| Bsu15I | ATCGAT | 1 cut(s) | 1175 |
| BsuRI | GGCC | 3 cut(s) | 378, 1073, 1242 |
| BsuTUI | ATCGAT | 1 cut(s) | 1175 |
| BtgI | CCRYGG | 2 cut(s) | 186, 645 |
| BtsCI | GGATG | 5 cut(s) | 514, 1438, 1707, 1714, 1722 |
| BtsIMutI | CAGTG | 5 cut(s) | 171, 384, 586, 662, 1303 |
| BveI | ACCTGC | 1 cut(s) | 1669 |
| Cac8I | GCNNGC | 2 cut(s) | 882, 1491 |
| CaiI | CAGNNNCTG | 4 cut(s) | 225, 458, 610, 1586 |
| CfoI | GCGC | 1 cut(s) | 230 |
| Cfr13I | GGNCC | 3 cut(s) | 377, 576, 1071 |
| ClaI | ATCGAT | 1 cut(s) | 1175 |
| CseI | GACGC | 2 cut(s) | 56, 1598 |
| Csp6I | GTAC | 1 cut(s) | 1649 |
| CviAII | CATG | 3 cut(s) | 646, 1375, 1785 |
| CviQI | GTAC | 1 cut(s) | 1649 |
| DdeI | CTNAG | 4 cut(s) | 387, 603, 629, 1050 |
| DraI | TTTAAA | 1 cut(s) | 1005 |
| DraIII | CACNNNGTG | 1 cut(s) | 1378 |
| Eam1104I | CTCTTC | 4 cut(s) | 70, 76, 432, 1478 |
| EarI | CTCTTC | 4 cut(s) | 70, 76, 432, 1478 |
| Eco130I | CCWWGG | 1 cut(s) | 645 |
| Eco24I | GRGCYC | 1 cut(s) | 604 |
| Eco32I | GATATC | 1 cut(s) | 212 |
| Eco47I | GGWCC | 1 cut(s) | 576 |
| Eco57I | CTGAAG | 5 cut(s) | 486, 515, 1196, 1623, 1823 |
| Eco88I | CYCGRG | 1 cut(s) | 1529 |
| EcoRII | CCWGG | 2 cut(s) | 353, 1020 |
| EcoRV | GATATC | 1 cut(s) | 212 |
| EcoT14I | CCWWGG | 1 cut(s) | 645 |
| EcoT38I | GRGCYC | 1 cut(s) | 604 |
| ErhI | CCWWGG | 1 cut(s) | 645 |
| FaeI | CATG | 3 cut(s) | 649, 1378, 1788 |
| FaqI | GGGAC | 1 cut(s) | 589 |
| FatI | CATG | 3 cut(s) | 645, 1374, 1784 |
| FbaI | TGATCA | 3 cut(s) | 175, 1342, 1683 |
| FblI | GTMKAC | 1 cut(s) | 900 |
| FokI | GGATG | 5 cut(s) | 521, 1425, 1714, 1721, 1729 |
| FriOI | GRGCYC | 1 cut(s) | 604 |
| FspBI | CTAG | 5 cut(s) | 207, 246, 948, 1010, 1521 |
| FspI | TGCGCA | 1 cut(s) | 229 |
| GlaI | GCGC | 1 cut(s) | 229 |
| GsuI | CTGGAG | 2 cut(s) | 546, 1004 |
| HaeIII | GGCC | 3 cut(s) | 378, 1073, 1242 |
| HapII | CCGG | 1 cut(s) | 366 |
| HgaI | GACGC | 2 cut(s) | 56, 1598 |
| HhaI | GCGC | 1 cut(s) | 230 |
| Hin1I | GRCGYC | 1 cut(s) | 48 |
| Hin1II | CATG | 3 cut(s) | 649, 1378, 1788 |
| Hin6I | GCGC | 1 cut(s) | 228 |
| HinP1I | GCGC | 1 cut(s) | 228 |
| HincII | GTYRAC | 1 cut(s) | 1090 |
| HindII | GTYRAC | 1 cut(s) | 1090 |
| HinfI | GANTC | 8 cut(s) | 332, 641, 701, 1207, 1507, 1545, 1555, 1781 |
| HpaII | CCGG | 1 cut(s) | 366 |
| HphI | GGTGA | 3 cut(s) | 88, 151, 1693 |
| Hpy166II | GTNNAC | 6 cut(s) | 308, 901, 1090, 1117, 1364, 1429 |
| Hpy188III | TCNNGA | 4 cut(s) | 611, 1214, 1529, 1586 |
| Hpy8I | GTNNAC | 6 cut(s) | 308, 901, 1090, 1117, 1364, 1429 |
| Hpy99I | CGWCG | 1 cut(s) | 50 |
| HpyAV | CCTTC | 8 cut(s) | 321, 490, 692, 793, 980, 1223, 1575, 1639 |
| HpyCH4III | ACNGT | 3 cut(s) | 322, 764, 1124 |
| HpyCH4IV | ACGT | 1 cut(s) | 1572 |
| HpyF3I | CTNAG | 4 cut(s) | 387, 603, 629, 1050 |
| HpySE526I | ACGT | 1 cut(s) | 1572 |
| Hsp92I | GRCGYC | 1 cut(s) | 48 |
| Hsp92II | CATG | 3 cut(s) | 649, 1378, 1788 |
| HspAI | GCGC | 1 cut(s) | 228 |
| Ksp22I | TGATCA | 3 cut(s) | 175, 1342, 1683 |
| LmnI | GCTCC | 7 cut(s) | 368, 401, 748, 1023, 1196, 1522, 1741 |
| LweI | GCATC | 4 cut(s) | 616, 659, 1031, 1258 |
| MaeI | CTAG | 5 cut(s) | 207, 246, 948, 1010, 1521 |
| MaeII | ACGT | 1 cut(s) | 1572 |
| MaeIII | GTNAC | 2 cut(s) | 472, 920 |
| MfeI | CAATTG | 1 cut(s) | 1415 |
| MflI | RGATCY | 4 cut(s) | 1027, 1216, 1523, 1582 |
| MhlI | GDGCHC | 1 cut(s) | 604 |
| MlyI | GAGTC | 1 cut(s) | 1501 |
| MroXI | GAANNNNTTC | 1 cut(s) | 423 |
| MseI | TTAA | 7 cut(s) | 317, 324, 1004, 1103, 1149, 1284, 1560 |
| MslI | CAYNNNNRTG | 3 cut(s) | 185, 1039, 1443 |
| MspA1I | CMGCKG | 2 cut(s) | 455, 1601 |
| MspI | CCGG | 1 cut(s) | 366 |
| MspR9I | CCNGG | 2 cut(s) | 355, 1022 |
| MunI | CAATTG | 1 cut(s) | 1415 |
| Mva1269I | GAATGC | 1 cut(s) | 1790 |
| MvaI | CCWGG | 2 cut(s) | 355, 1022 |
| NcoI | CCATGG | 1 cut(s) | 645 |
| NlaIII | CATG | 3 cut(s) | 649, 1378, 1788 |
| NlaIV | GGNNCC | 2 cut(s) | 577, 717 |
| NsbI | TGCGCA | 1 cut(s) | 229 |
| PaeR7I | CTCGAG | 1 cut(s) | 1529 |
| PaqCI | CACCTGC | 1 cut(s) | 1669 |
| PctI | GAATGC | 1 cut(s) | 1790 |
| PdmI | GAANNNNTTC | 1 cut(s) | 423 |
| PfeI | GAWTC | 7 cut(s) | 332, 641, 701, 1207, 1545, 1555, 1781 |
| PfoI | TCCNGGA | 1 cut(s) | 1020 |
| PleI | GAGTC | 1 cut(s) | 1501 |
| PpsI | GAGTC | 1 cut(s) | 1501 |
| Psp6I | CCWGG | 2 cut(s) | 353, 1020 |
| PspGI | CCWGG | 2 cut(s) | 353, 1020 |
| PspN4I | GGNNCC | 2 cut(s) | 577, 717 |
| PspPI | GGNCC | 3 cut(s) | 377, 576, 1071 |
| PstI | CTGCAG | 1 cut(s) | 747 |
| PstNI | CAGNNNCTG | 4 cut(s) | 225, 458, 610, 1586 |
| PsuI | RGATCY | 4 cut(s) | 1027, 1216, 1523, 1582 |
| PvuII | CAGCTG | 2 cut(s) | 455, 1601 |
| RsaI | GTAC | 1 cut(s) | 1650 |
| RsaNI | GTAC | 1 cut(s) | 1649 |
| RseI | CAYNNNNRTG | 3 cut(s) | 185, 1039, 1443 |
| SaqAI | TTAA | 7 cut(s) | 317, 324, 1004, 1103, 1149, 1284, 1560 |
| Sau96I | GGNCC | 3 cut(s) | 377, 576, 1071 |
| SchI | GAGTC | 1 cut(s) | 1501 |
| ScrFI | CCNGG | 2 cut(s) | 355, 1022 |
| SduI | GDGCHC | 1 cut(s) | 604 |
| SfaNI | GCATC | 4 cut(s) | 616, 659, 1031, 1258 |
| SfcI | CTRYAG | 2 cut(s) | 414, 743 |
| Sfr274I | CTCGAG | 1 cut(s) | 1529 |
| SinI | GGWCC | 1 cut(s) | 576 |
| SlaI | CTCGAG | 1 cut(s) | 1529 |
| SmiMI | CAYNNNNRTG | 3 cut(s) | 185, 1039, 1443 |
| SmlI | CTYRAG | 2 cut(s) | 925, 1529 |
| SmoI | CTYRAG | 2 cut(s) | 925, 1529 |
| SsiI | CCGC | 3 cut(s) | 113, 1044, 1074 |
| SspMI | CTAG | 5 cut(s) | 207, 246, 948, 1010, 1521 |
| StyD4I | CCNGG | 2 cut(s) | 353, 1020 |
| StyI | CCWWGG | 1 cut(s) | 645 |
| TaaI | ACNGT | 3 cut(s) | 322, 764, 1124 |
| TaiI | ACGT | 1 cut(s) | 1575 |
| TaqI | TCGA | 4 cut(s) | 349, 1175, 1349, 1530 |
| TauI | GCSGC | 2 cut(s) | 1047, 1076 |
| TfiI | GAWTC | 7 cut(s) | 332, 641, 701, 1207, 1545, 1555, 1781 |
| Tru1I | TTAA | 7 cut(s) | 317, 324, 1004, 1103, 1149, 1284, 1560 |
| Tru9I | TTAA | 7 cut(s) | 317, 324, 1004, 1103, 1149, 1284, 1560 |
| TscAI | CASTG | 5 cut(s) | 178, 391, 586, 669, 1310 |
| TspGWI | ACGGA | 3 cut(s) | 97, 838, 1446 |
| TspRI | CASTG | 5 cut(s) | 178, 391, 586, 669, 1310 |
| VpaK11BI | GGWCC | 1 cut(s) | 576 |
| XapI | RAATTY | 3 cut(s) | 553, 731, 1262 |
| XhoI | CTCGAG | 1 cut(s) | 1529 |
| XmiI | GTMKAC | 1 cut(s) | 900 |
| XmnI | GAANNNNTTC | 1 cut(s) | 423 |
| XspI | CTAG | 5 cut(s) | 207, 246, 948, 1010, 1521 |