RAP
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 |
|---|---|
| arabidopsis_thaliana | AT2G31890 |
| fragaria_vesca | FvH4_1g00100 |
| malus_domestica | MD11G1156300.v1.1 |
| prunus_persica | Prupe.6G118500_v2.0.a1 Prupe.6G118500_v2.0.a1 Prupe.6G118500_v2.0.a1 Prupe.6G118500_v2.0.a1 |
| pyrus_communis | pycom11g12690 |
| rosa_chinensis | RchiOBHm_Chr2g0084391 |
| rosa_laevigata | RLG00000015613 |
| rosa_multiflora | Rmu_sc0009404.1_g000009 |
| rosa_roxburghii | Rroxscaffold_2G00156140 |
| rosa_rugosa | Rorug01G0453000 Rorug01G0453100 Rorug01G0453200 Rorug01G0453300 |
| rosa_samantha | Rh2AG001400 Rh2BG001300 Rh2CG001300 Rh2DG001500 |
| rosa_wichuraiana | Rw2G000110 |
| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AanI | TTATAA | 1 cut(s) | 1289 |
| AccB7I | CCANNNNNTGG | 1 cut(s) | 525 |
| AccII | CGCG | 1 cut(s) | 1217 |
| AciI | CCGC | 4 cut(s) | 188, 1217, 1576, 1984 |
| AclWI | GGATC | 2 cut(s) | 1533, 1856 |
| AcsI | RAATTY | 3 cut(s) | 228, 1629, 2082 |
| AcvI | CACGTG | 1 cut(s) | 1757 |
| AfaI | GTAC | 2 cut(s) | 1706, 1874 |
| AfiI | CCNNNNNNNGG | 6 cut(s) | 54, 55, 444, 525, 1182, 1596 |
| AflIII | ACRYGT | 1 cut(s) | 998 |
| AjnI | CCWGG | 1 cut(s) | 300 |
| Alw21I | GWGCWC | 3 cut(s) | 118, 1512, 2097 |
| Alw26I | GTCTC | 4 cut(s) | 534, 878, 989, 2028 |
| AlwI | GGATC | 2 cut(s) | 1533, 1856 |
| AoxI | GGCC | 4 cut(s) | 797, 1167, 1837, 1924 |
| ApeKI | GCWGC | 6 cut(s) | 136, 448, 1129, 1416, 1997, 2062 |
| ApoI | RAATTY | 3 cut(s) | 228, 1629, 2082 |
| ArsI | GACNNNNNNTTYG | 1 cut(s) | 27 |
| AspS9I | GGNCC | 3 cut(s) | 797, 1573, 1925 |
| AsuHPI | GGTGA | 3 cut(s) | 368, 604, 1136 |
| AsuII | TTCGAA | 1 cut(s) | 109 |
| AvaII | GGWCC | 1 cut(s) | 1573 |
| BanII | GRGCYC | 1 cut(s) | 282 |
| BarI | GAAGNNNNNNTAC | 4 cut(s) | 90, 122, 1688, 1720 |
| BauI | CACGAG | 1 cut(s) | 1099 |
| BbrPI | CACGTG | 1 cut(s) | 1757 |
| BbsI | GAAGAC | 4 cut(s) | 428, 642, 660, 761 |
| Bbv12I | GWGCWC | 3 cut(s) | 118, 1512, 2097 |
| BbvI | GCAGC | 6 cut(s) | 148, 435, 1116, 1403, 2009, 2074 |
| BccI | CCATC | 5 cut(s) | 65, 347, 353, 808, 1916 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 610, 644 |
| BciT130I | CCWGG | 1 cut(s) | 302 |
| BcoDI | GTCTC | 4 cut(s) | 534, 878, 989, 2028 |
| BfaI | CTAG | 5 cut(s) | 444, 992, 1562, 1679, 2066 |
| BfmI | CTRYAG | 2 cut(s) | 855, 1995 |
| BglII | AGATCT | 2 cut(s) | 1474, 1735 |
| BisI | GCNGC | 7 cut(s) | 137, 449, 1130, 1417, 1984, 1998, 2063 |
| BlsI | GCNGC | 7 cut(s) | 138, 450, 1131, 1418, 1985, 1999, 2064 |
| Bme1390I | CCNGG | 1 cut(s) | 302 |
| Bme18I | GGWCC | 1 cut(s) | 1573 |
| BmgT120I | GGNCC | 3 cut(s) | 797, 1573, 1925 |
| BmiI | GGNNCC | 2 cut(s) | 281, 1956 |
| BmrFI | CCNGG | 1 cut(s) | 302 |
| BmrI | ACTGGG | 2 cut(s) | 285, 1959 |
| BmsI | GCATC | 5 cut(s) | 667, 978, 1289, 1387, 1873 |
| BmuI | ACTGGG | 2 cut(s) | 285, 1959 |
| BpiI | GAAGAC | 4 cut(s) | 428, 642, 660, 761 |
| BplI | GAGNNNNNCTC | 2 cut(s) | 904, 936 |
| Bpu10I | CCTNAGC | 1 cut(s) | 1320 |
| Bpu14I | TTCGAA | 1 cut(s) | 109 |
| BpuEI | CTTGAG | 6 cut(s) | 931, 1065, 1653, 1721, 1760, 1924 |
| BsaAI | YACGTR | 2 cut(s) | 1001, 1757 |
| BsaI | GGTCTC | 1 cut(s) | 534 |
| BsaJI | CCNNGG | 3 cut(s) | 519, 1176, 1959 |
| Bsc4I | CCNNNNNNNGG | 6 cut(s) | 54, 55, 444, 525, 1182, 1596 |
| Bse118I | RCCGGY | 1 cut(s) | 1760 |
| Bse1I | ACTGG | 6 cut(s) | 178, 280, 594, 1687, 1840, 1954 |
| Bse3DI | GCAATG | 3 cut(s) | 939, 1059, 1491 |
| BseBI | CCWGG | 1 cut(s) | 302 |
| BseDI | CCNNGG | 3 cut(s) | 519, 1176, 1959 |
| BseGI | GGATG | 4 cut(s) | 141, 738, 1657, 1888 |
| BseLI | CCNNNNNNNGG | 6 cut(s) | 54, 55, 444, 525, 1182, 1596 |
| BseMI | GCAATG | 3 cut(s) | 939, 1059, 1491 |
| BseMII | CTCAG | 7 cut(s) | 131, 453, 807, 873, 1254, 1334, 1525 |
| BseNI | ACTGG | 6 cut(s) | 178, 280, 594, 1687, 1840, 1954 |
| BseRI | GAGGAG | 2 cut(s) | 272, 1757 |
| BseXI | GCAGC | 6 cut(s) | 148, 435, 1116, 1403, 2009, 2074 |
| BseYI | CCCAGC | 1 cut(s) | 721 |
| BsgI | GTGCAG | 1 cut(s) | 44 |
| Bsh1236I | CGCG | 1 cut(s) | 1217 |
| BshFI | GGCC | 4 cut(s) | 799, 1169, 1839, 1926 |
| BsiHKAI | GWGCWC | 3 cut(s) | 118, 1512, 2097 |
| BsiSI | CCGG | 1 cut(s) | 1761 |
| BslFI | GGGAC | 3 cut(s) | 71, 900, 1977 |
| BslI | CCNNNNNNNGG | 6 cut(s) | 54, 55, 444, 525, 1182, 1596 |
| BsmAI | GTCTC | 4 cut(s) | 534, 878, 989, 2028 |
| BsmFI | GGGAC | 3 cut(s) | 71, 900, 1977 |
| BsnI | GGCC | 4 cut(s) | 799, 1169, 1839, 1926 |
| Bso31I | GGTCTC | 1 cut(s) | 534 |
| Bsp119I | TTCGAA | 1 cut(s) | 109 |
| Bsp1286I | GDGCHC | 4 cut(s) | 118, 282, 1512, 2097 |
| Bsp143I | GATC | 7 cut(s) | 27, 805, 1252, 1474, 1525, 1735, 1848 |
| BspACI | CCGC | 4 cut(s) | 188, 1217, 1576, 1984 |
| BspANI | GGCC | 4 cut(s) | 799, 1169, 1839, 1926 |
| BspCNI | CTCAG | 7 cut(s) | 130, 454, 806, 874, 1255, 1333, 1524 |
| BspFNI | CGCG | 1 cut(s) | 1217 |
| BspLI | GGNNCC | 2 cut(s) | 281, 1956 |
| BspMAI | CTGCAG | 2 cut(s) | 859, 1999 |
| BspPI | GGATC | 2 cut(s) | 1533, 1856 |
| BspQI | GCTCTTC | 2 cut(s) | 957, 1614 |
| BspT104I | TTCGAA | 1 cut(s) | 109 |
| BspTNI | GGTCTC | 1 cut(s) | 534 |
| BsrDI | GCAATG | 3 cut(s) | 939, 1059, 1491 |
| BsrFI | RCCGGY | 1 cut(s) | 1760 |
| BsrI | ACTGG | 6 cut(s) | 178, 280, 594, 1687, 1840, 1954 |
| BssAI | RCCGGY | 1 cut(s) | 1760 |
| BssECI | CCNNGG | 3 cut(s) | 519, 1176, 1959 |
| BssMI | GATC | 7 cut(s) | 27, 805, 1252, 1474, 1525, 1735, 1848 |
| BssSI | CACGAG | 1 cut(s) | 1099 |
| BssT1I | CCWWGG | 3 cut(s) | 519, 1176, 1959 |
| Bst2BI | CACGAG | 1 cut(s) | 1099 |
| Bst2UI | CCWGG | 1 cut(s) | 302 |
| Bst4CI | ACNGT | 3 cut(s) | 712, 1641, 1879 |
| Bst6I | CTCTTC | 3 cut(s) | 735, 957, 1614 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 854 |
| BstBAI | YACGTR | 2 cut(s) | 1001, 1757 |
| BstBI | TTCGAA | 1 cut(s) | 109 |
| BstC8I | GCNNGC | 3 cut(s) | 163, 623, 1317 |
| BstF5I | GGATG | 4 cut(s) | 141, 738, 1657, 1888 |
| BstFNI | CGCG | 1 cut(s) | 1217 |
| BstKTI | GATC | 7 cut(s) | 30, 808, 1255, 1477, 1528, 1738, 1851 |
| BstMAI | GTCTC | 4 cut(s) | 534, 878, 989, 2028 |
| BstMBI | GATC | 7 cut(s) | 27, 805, 1252, 1474, 1525, 1735, 1848 |
| BstMWI | GCNNNNNNNGC | 5 cut(s) | 136, 854, 1058, 1166, 1214 |
| BstNI | CCWGG | 1 cut(s) | 302 |
| BstNSI | RCATGY | 1 cut(s) | 199 |
| BstSCI | CCNGG | 1 cut(s) | 300 |
| BstSFI | CTRYAG | 2 cut(s) | 855, 1995 |
| BstUI | CGCG | 1 cut(s) | 1217 |
| BstV1I | GCAGC | 6 cut(s) | 148, 435, 1116, 1403, 2009, 2074 |
| BstV2I | GAAGAC | 4 cut(s) | 428, 642, 660, 761 |
| BstX2I | RGATCY | 2 cut(s) | 1474, 1735 |
| BstYI | RGATCY | 2 cut(s) | 1474, 1735 |
| BsuRI | GGCC | 4 cut(s) | 799, 1169, 1839, 1926 |
| BtsCI | GGATG | 4 cut(s) | 141, 738, 1657, 1888 |
| BtsI | GCAGTG | 1 cut(s) | 945 |
| BtsIMutI | CAGTG | 4 cut(s) | 945, 1694, 1833, 1875 |
| Cac8I | GCNNGC | 3 cut(s) | 163, 623, 1317 |
| Cfr10I | RCCGGY | 1 cut(s) | 1760 |
| Cfr13I | GGNCC | 3 cut(s) | 797, 1573, 1925 |
| CsiI | ACCWGGT | 1 cut(s) | 300 |
| Csp6I | GTAC | 2 cut(s) | 1705, 1873 |
| CviAII | CATG | 8 cut(s) | 50, 196, 469, 973, 1234, 1349, 1592, 1657 |
| CviQI | GTAC | 2 cut(s) | 1705, 1873 |
| DpnI | GATC | 7 cut(s) | 29, 807, 1254, 1476, 1527, 1737, 1850 |
| DpnII | GATC | 7 cut(s) | 27, 805, 1252, 1474, 1525, 1735, 1848 |
| DraI | TTTAAA | 1 cut(s) | 1728 |
| Eam1104I | CTCTTC | 3 cut(s) | 735, 957, 1614 |
| EarI | CTCTTC | 3 cut(s) | 735, 957, 1614 |
| Eco130I | CCWWGG | 3 cut(s) | 519, 1176, 1959 |
| Eco24I | GRGCYC | 1 cut(s) | 282 |
| Eco31I | GGTCTC | 1 cut(s) | 534 |
| Eco47I | GGWCC | 1 cut(s) | 1573 |
| Eco72I | CACGTG | 1 cut(s) | 1757 |
| EcoRII | CCWGG | 1 cut(s) | 300 |
| EcoT14I | CCWWGG | 3 cut(s) | 519, 1176, 1959 |
| EcoT22I | ATGCAT | 1 cut(s) | 682 |
| EcoT38I | GRGCYC | 1 cut(s) | 282 |
| ErhI | CCWWGG | 3 cut(s) | 519, 1176, 1959 |
| FaeI | CATG | 8 cut(s) | 53, 199, 472, 976, 1237, 1352, 1595, 1660 |
| FalI | AAGNNNNNCTT | 4 cut(s) | 192, 224, 624, 656 |
| FaqI | GGGAC | 3 cut(s) | 71, 900, 1977 |
| FatI | CATG | 8 cut(s) | 49, 195, 468, 972, 1233, 1348, 1591, 1656 |
| FauI | CCCGC | 1 cut(s) | 1210 |
| Fnu4HI | GCNGC | 7 cut(s) | 137, 449, 1130, 1417, 1984, 1998, 2063 |
| FokI | GGATG | 4 cut(s) | 128, 745, 1664, 1895 |
| FriOI | GRGCYC | 1 cut(s) | 282 |
| Fsp4HI | GCNGC | 7 cut(s) | 137, 449, 1130, 1417, 1984, 1998, 2063 |
| FspBI | CTAG | 5 cut(s) | 444, 992, 1562, 1679, 2066 |
| GluI | GCNGC | 7 cut(s) | 137, 449, 1130, 1417, 1984, 1998, 2063 |
| GsaI | CCCAGC | 1 cut(s) | 725 |
| HaeIII | GGCC | 4 cut(s) | 799, 1169, 1839, 1926 |
| HapII | CCGG | 1 cut(s) | 1761 |
| Hin1II | CATG | 8 cut(s) | 53, 199, 472, 976, 1237, 1352, 1595, 1660 |
| HindIII | AAGCTT | 2 cut(s) | 257, 1697 |
| HinfI | GANTC | 6 cut(s) | 644, 913, 1352, 1373, 1438, 1603 |
| HpaII | CCGG | 1 cut(s) | 1761 |
| HphI | GGTGA | 3 cut(s) | 368, 604, 1136 |
| Hpy166II | GTNNAC | 5 cut(s) | 193, 1462, 1684, 1867, 1875 |
| Hpy188I | TCNGA | 8 cut(s) | 120, 649, 777, 805, 1144, 1252, 1520, 1636 |
| Hpy188III | TCNNGA | 6 cut(s) | 455, 1262, 1478, 1739, 1941, 2030 |
| Hpy8I | GTNNAC | 5 cut(s) | 193, 1462, 1684, 1867, 1875 |
| HpyAV | CCTTC | 5 cut(s) | 47, 226, 1515, 2042, 2083 |
| HpyCH4III | ACNGT | 3 cut(s) | 712, 1641, 1879 |
| HpyCH4IV | ACGT | 2 cut(s) | 1000, 1756 |
| HpyF10VI | GCNNNNNNNGC | 5 cut(s) | 136, 854, 1058, 1166, 1214 |
| HpySE526I | ACGT | 2 cut(s) | 1000, 1756 |
| Hsp92II | CATG | 8 cut(s) | 53, 199, 472, 976, 1237, 1352, 1595, 1660 |
| Kzo9I | GATC | 7 cut(s) | 27, 805, 1252, 1474, 1525, 1735, 1848 |
| LguI | GCTCTTC | 2 cut(s) | 957, 1614 |
| LmnI | GCTCC | 3 cut(s) | 285, 1507, 2092 |
| Lsp1109I | GCAGC | 6 cut(s) | 148, 435, 1116, 1403, 2009, 2074 |
| LweI | GCATC | 5 cut(s) | 667, 978, 1289, 1387, 1873 |
| MabI | ACCWGGT | 1 cut(s) | 300 |
| MaeI | CTAG | 5 cut(s) | 444, 992, 1562, 1679, 2066 |
| MaeII | ACGT | 2 cut(s) | 1000, 1756 |
| MaeIII | GTNAC | 3 cut(s) | 265, 592, 874 |
| MalI | GATC | 7 cut(s) | 29, 807, 1254, 1476, 1527, 1737, 1850 |
| MboI | GATC | 7 cut(s) | 27, 805, 1252, 1474, 1525, 1735, 1848 |
| MfeI | CAATTG | 1 cut(s) | 837 |
| MflI | RGATCY | 2 cut(s) | 1474, 1735 |
| MhlI | GDGCHC | 4 cut(s) | 118, 282, 1512, 2097 |
| MlyI | GAGTC | 3 cut(s) | 922, 1361, 1597 |
| MmeI | TCCRAC | 1 cut(s) | 1985 |
| Mph1103I | ATGCAT | 1 cut(s) | 682 |
| MseI | TTAA | 7 cut(s) | 33, 210, 701, 1172, 1191, 1727, 1779 |
| MspA1I | CMGCKG | 2 cut(s) | 188, 2000 |
| MspI | CCGG | 1 cut(s) | 1761 |
| MspR9I | CCNGG | 1 cut(s) | 302 |
| MunI | CAATTG | 1 cut(s) | 837 |
| MvaI | CCWGG | 1 cut(s) | 302 |
| MvnI | CGCG | 1 cut(s) | 1217 |
| MwoI | GCNNNNNNNGC | 5 cut(s) | 136, 854, 1058, 1166, 1214 |
| NdeII | GATC | 7 cut(s) | 27, 805, 1252, 1474, 1525, 1735, 1848 |
| NlaIII | CATG | 8 cut(s) | 53, 199, 472, 976, 1237, 1352, 1595, 1660 |
| NlaIV | GGNNCC | 2 cut(s) | 281, 1956 |
| NmuCI | GTSAC | 2 cut(s) | 265, 592 |
| NsiI | ATGCAT | 1 cut(s) | 682 |
| NspI | RCATGY | 1 cut(s) | 199 |
| NspV | TTCGAA | 1 cut(s) | 109 |
| PciSI | GCTCTTC | 2 cut(s) | 957, 1614 |
| PfeI | GAWTC | 3 cut(s) | 644, 1373, 1438 |
| PflMI | CCANNNNNTGG | 1 cut(s) | 525 |
| PkrI | GCNGC | 7 cut(s) | 138, 450, 1131, 1418, 1985, 1999, 2064 |
| PleI | GAGTC | 3 cut(s) | 921, 1360, 1597 |
| PmaCI | CACGTG | 1 cut(s) | 1757 |
| PmlI | CACGTG | 1 cut(s) | 1757 |
| PpsI | GAGTC | 3 cut(s) | 921, 1360, 1597 |
| Ppu21I | YACGTR | 2 cut(s) | 1001, 1757 |
| PsiI | TTATAA | 1 cut(s) | 1289 |
| Psp6I | CCWGG | 1 cut(s) | 300 |
| PspCI | CACGTG | 1 cut(s) | 1757 |
| PspFI | CCCAGC | 1 cut(s) | 721 |
| PspGI | CCWGG | 1 cut(s) | 300 |
| PspN4I | GGNNCC | 2 cut(s) | 281, 1956 |
| PspPI | GGNCC | 3 cut(s) | 797, 1573, 1925 |
| PstI | CTGCAG | 2 cut(s) | 859, 1999 |
| PsuI | RGATCY | 2 cut(s) | 1474, 1735 |
| PvuII | CAGCTG | 1 cut(s) | 2000 |
| RsaI | GTAC | 2 cut(s) | 1706, 1874 |
| RsaNI | GTAC | 2 cut(s) | 1705, 1873 |
| SapI | GCTCTTC | 2 cut(s) | 957, 1614 |
| SaqAI | TTAA | 7 cut(s) | 33, 210, 701, 1172, 1191, 1727, 1779 |
| SatI | GCNGC | 7 cut(s) | 137, 449, 1130, 1417, 1984, 1998, 2063 |
| Sau3AI | GATC | 7 cut(s) | 27, 805, 1252, 1474, 1525, 1735, 1848 |
| Sau96I | GGNCC | 3 cut(s) | 797, 1573, 1925 |
| SchI | GAGTC | 3 cut(s) | 922, 1361, 1597 |
| ScrFI | CCNGG | 1 cut(s) | 302 |
| SduI | GDGCHC | 4 cut(s) | 118, 282, 1512, 2097 |
| SexAI | ACCWGGT | 1 cut(s) | 300 |
| SfaNI | GCATC | 5 cut(s) | 667, 978, 1289, 1387, 1873 |
| SfcI | CTRYAG | 2 cut(s) | 855, 1995 |
| SfuI | TTCGAA | 1 cut(s) | 109 |
| SinI | GGWCC | 1 cut(s) | 1573 |
| SmlI | CTYRAG | 6 cut(s) | 910, 1080, 1668, 1700, 1739, 1939 |
| SmoI | CTYRAG | 6 cut(s) | 910, 1080, 1668, 1700, 1739, 1939 |
| SsiI | CCGC | 4 cut(s) | 188, 1217, 1576, 1984 |
| SspMI | CTAG | 5 cut(s) | 444, 992, 1562, 1679, 2066 |
| StyD4I | CCNGG | 1 cut(s) | 300 |
| StyI | CCWWGG | 3 cut(s) | 519, 1176, 1959 |
| TaaI | ACNGT | 3 cut(s) | 712, 1641, 1879 |
| TaiI | ACGT | 2 cut(s) | 1003, 1759 |
| TaqI | TCGA | 7 cut(s) | 109, 351, 509, 630, 958, 986, 1436 |
| TauI | GCSGC | 1 cut(s) | 1986 |
| TfiI | GAWTC | 3 cut(s) | 644, 1373, 1438 |
| Tru1I | TTAA | 7 cut(s) | 33, 210, 701, 1172, 1191, 1727, 1779 |
| Tru9I | TTAA | 7 cut(s) | 33, 210, 701, 1172, 1191, 1727, 1779 |
| TscAI | CASTG | 4 cut(s) | 952, 1694, 1840, 1882 |
| TseFI | GTSAC | 2 cut(s) | 265, 592 |
| TseI | GCWGC | 6 cut(s) | 136, 448, 1129, 1416, 1997, 2062 |
| Tsp45I | GTSAC | 2 cut(s) | 265, 592 |
| TspDTI | ATGAA | 7 cut(s) | 66, 623, 944, 1250, 1664, 1706, 1785 |
| TspRI | CASTG | 4 cut(s) | 952, 1694, 1840, 1882 |
| Van91I | CCANNNNNTGG | 1 cut(s) | 525 |
| VpaK11BI | GGWCC | 1 cut(s) | 1573 |
| XapI | RAATTY | 3 cut(s) | 228, 1629, 2082 |
| XceI | RCATGY | 1 cut(s) | 199 |
| XspI | CTAG | 5 cut(s) | 444, 992, 1562, 1679, 2066 |
| Zsp2I | ATGCAT | 1 cut(s) | 682 |