RNA 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.
| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AarI | CACCTGC | 1 cut(s) | 217 |
| AasI | GACNNNNNNGTC | 1 cut(s) | 1618 |
| Acc36I | ACCTGC | 1 cut(s) | 217 |
| AccB1I | GGYRCC | 1 cut(s) | 346 |
| AccI | GTMKAC | 1 cut(s) | 1296 |
| AciI | CCGC | 9 cut(s) | 311, 344, 371, 434, 473, 494, 569, 611, 650 |
| AclWI | GGATC | 1 cut(s) | 1054 |
| AcoI | YGGCCR | 1 cut(s) | 843 |
| AcsI | RAATTY | 4 cut(s) | 28, 82, 925, 992 |
| AcuI | CTGAAG | 2 cut(s) | 600, 1230 |
| AfaI | GTAC | 3 cut(s) | 1124, 1233, 1647 |
| AfiI | CCNNNNNNNGG | 5 cut(s) | 340, 380, 551, 971, 1682 |
| AflIII | ACRYGT | 1 cut(s) | 1543 |
| AgeI | ACCGGT | 1 cut(s) | 190 |
| AgsI | TTSAA | 6 cut(s) | 1032, 1217, 1490, 1718, 1754, 1763 |
| AjnI | CCWGG | 2 cut(s) | 757, 1254 |
| AjuI | GAANNNNNNNTTGG | 4 cut(s) | 313, 345, 1095, 1127 |
| AloI | GAACNNNNNNTCC | 4 cut(s) | 1184, 1185, 1216, 1217 |
| Alw21I | GWGCWC | 2 cut(s) | 828, 1738 |
| Alw26I | GTCTC | 2 cut(s) | 378, 522 |
| Alw44I | GTGCAC | 1 cut(s) | 1734 |
| AlwI | GGATC | 1 cut(s) | 1054 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 1016 |
| AoxI | GGCC | 2 cut(s) | 843, 947 |
| ApaLI | GTGCAC | 1 cut(s) | 1734 |
| ApeKI | GCWGC | 4 cut(s) | 149, 158, 1385, 1394 |
| ApoI | RAATTY | 4 cut(s) | 28, 82, 925, 992 |
| AsiGI | ACCGGT | 1 cut(s) | 190 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 979 |
| AspS9I | GGNCC | 1 cut(s) | 948 |
| AsuII | TTCGAA | 1 cut(s) | 1082 |
| AsuNHI | GCTAGC | 1 cut(s) | 1522 |
| AxyI | CCTNAGG | 1 cut(s) | 679 |
| BaeGI | GKGCMC | 1 cut(s) | 1738 |
| BaeI | ACNNNNGTAYC | 2 cut(s) | 1114, 1147 |
| BanI | GGYRCC | 1 cut(s) | 346 |
| BauI | CACGAG | 2 cut(s) | 1398, 1554 |
| BbsI | GAAGAC | 2 cut(s) | 255, 627 |
| Bbv12I | GWGCWC | 2 cut(s) | 828, 1738 |
| BbvCI | CCTCAGC | 1 cut(s) | 154 |
| BbvI | GCAGC | 4 cut(s) | 136, 145, 1372, 1406 |
| BceAI | ACGGC | 2 cut(s) | 759, 830 |
| BciT130I | CCWGG | 2 cut(s) | 759, 1256 |
| BciVI | GTATCC | 3 cut(s) | 373, 1525, 1568 |
| BcoDI | GTCTC | 2 cut(s) | 378, 522 |
| BfaI | CTAG | 4 cut(s) | 1371, 1523, 1727, 1743 |
| BfmI | CTRYAG | 1 cut(s) | 213 |
| BfuAI | ACCTGC | 1 cut(s) | 217 |
| BfuI | GTATCC | 3 cut(s) | 373, 1525, 1568 |
| BisI | GCNGC | 5 cut(s) | 150, 159, 345, 1386, 1395 |
| BlsI | GCNGC | 5 cut(s) | 151, 160, 346, 1387, 1396 |
| Bme1390I | CCNGG | 2 cut(s) | 759, 1256 |
| BmgT120I | GGNCC | 1 cut(s) | 948 |
| BmiI | GGNNCC | 3 cut(s) | 348, 950, 1584 |
| BmrFI | CCNGG | 2 cut(s) | 759, 1256 |
| BmrI | ACTGGG | 1 cut(s) | 648 |
| BmsI | GCATC | 7 cut(s) | 227, 314, 362, 454, 476, 721, 1288 |
| BmtI | GCTAGC | 1 cut(s) | 1526 |
| BmuI | ACTGGG | 1 cut(s) | 648 |
| BpiI | GAAGAC | 2 cut(s) | 255, 627 |
| BpmI | CTGGAG | 8 cut(s) | 129, 153, 273, 441, 804, 942, 1038, 1569 |
| Bpu10I | CCTNAGC | 2 cut(s) | 154, 1494 |
| Bpu14I | TTCGAA | 1 cut(s) | 1082 |
| BsaBI | GATNNNNATC | 1 cut(s) | 1428 |
| BsaJI | CCNNGG | 1 cut(s) | 1254 |
| BsaWI | WCCGGW | 1 cut(s) | 190 |
| BsaXI | ACNNNNNCTCC | 8 cut(s) | 319, 349, 529, 559, 658, 688, 777, 807 |
| Bsc4I | CCNNNNNNNGG | 5 cut(s) | 340, 380, 551, 971, 1682 |
| Bse118I | RCCGGY | 2 cut(s) | 190, 1351 |
| Bse1I | ACTGG | 3 cut(s) | 654, 787, 1669 |
| Bse21I | CCTNAGG | 1 cut(s) | 679 |
| Bse8I | GATNNNNATC | 1 cut(s) | 1428 |
| BseBI | CCWGG | 2 cut(s) | 759, 1256 |
| BseDI | CCNNGG | 1 cut(s) | 1254 |
| BseGI | GGATG | 7 cut(s) | 128, 353, 479, 917, 1429, 1467, 1687 |
| BseJI | GATNNNNATC | 1 cut(s) | 1428 |
| BseLI | CCNNNNNNNGG | 5 cut(s) | 340, 380, 551, 971, 1682 |
| BseMII | CTCAG | 7 cut(s) | 168, 572, 693, 841, 1266, 1508, 1703 |
| BseNI | ACTGG | 3 cut(s) | 654, 787, 1669 |
| BseSI | GKGCMC | 1 cut(s) | 1738 |
| BseXI | GCAGC | 4 cut(s) | 136, 145, 1372, 1406 |
| BseYI | CCCAGC | 1 cut(s) | 301 |
| BsgI | GTGCAG | 1 cut(s) | 1413 |
| BshFI | GGCC | 2 cut(s) | 845, 949 |
| BshNI | GGYRCC | 1 cut(s) | 346 |
| BshTI | ACCGGT | 1 cut(s) | 190 |
| BsiHKAI | GWGCWC | 2 cut(s) | 828, 1738 |
| BsiSI | CCGG | 3 cut(s) | 191, 341, 1352 |
| BslI | CCNNNNNNNGG | 5 cut(s) | 340, 380, 551, 971, 1682 |
| BsmAI | GTCTC | 2 cut(s) | 378, 522 |
| BsnI | GGCC | 2 cut(s) | 845, 949 |
| Bsp119I | TTCGAA | 1 cut(s) | 1082 |
| Bsp1286I | GDGCHC | 2 cut(s) | 828, 1738 |
| Bsp1407I | TGTACA | 1 cut(s) | 1122 |
| Bsp143I | GATC | 3 cut(s) | 74, 1034, 1059 |
| BspACI | CCGC | 9 cut(s) | 311, 344, 371, 434, 473, 494, 569, 611, 650 |
| BspANI | GGCC | 2 cut(s) | 845, 949 |
| BspCNI | CTCAG | 7 cut(s) | 167, 571, 692, 840, 1267, 1507, 1702 |
| BspLI | GGNNCC | 3 cut(s) | 348, 950, 1584 |
| BspMI | ACCTGC | 1 cut(s) | 217 |
| BspOI | GCTAGC | 1 cut(s) | 1526 |
| BspPI | GGATC | 1 cut(s) | 1054 |
| BspT104I | TTCGAA | 1 cut(s) | 1082 |
| BspT107I | GGYRCC | 1 cut(s) | 346 |
| BsrFI | RCCGGY | 2 cut(s) | 190, 1351 |
| BsrGI | TGTACA | 1 cut(s) | 1122 |
| BsrI | ACTGG | 3 cut(s) | 654, 787, 1669 |
| BssAI | RCCGGY | 2 cut(s) | 190, 1351 |
| BssECI | CCNNGG | 1 cut(s) | 1254 |
| BssMI | GATC | 3 cut(s) | 74, 1034, 1059 |
| BssSI | CACGAG | 2 cut(s) | 1398, 1554 |
| Bst2BI | CACGAG | 2 cut(s) | 1398, 1554 |
| Bst2UI | CCWGG | 2 cut(s) | 759, 1256 |
| Bst4CI | ACNGT | 3 cut(s) | 126, 535, 1268 |
| Bst6I | CTCTTC | 3 cut(s) | 139, 863, 1141 |
| BstAUI | TGTACA | 1 cut(s) | 1122 |
| BstBI | TTCGAA | 1 cut(s) | 1082 |
| BstC8I | GCNNGC | 7 cut(s) | 686, 690, 1024, 1515, 1524, 1673, 1734 |
| BstDEI | CTNAG | 9 cut(s) | 154, 258, 558, 679, 827, 858, 1275, 1494, 1689 |
| BstF5I | GGATG | 7 cut(s) | 128, 353, 479, 917, 1429, 1467, 1687 |
| BstKTI | GATC | 3 cut(s) | 77, 1037, 1062 |
| BstMAI | GTCTC | 2 cut(s) | 378, 522 |
| BstMBI | GATC | 3 cut(s) | 74, 1034, 1059 |
| BstMWI | GCNNNNNNNGC | 9 cut(s) | 155, 158, 350, 1391, 1394, 1434, 1499, 1519, 1523 |
| BstNI | CCWGG | 2 cut(s) | 759, 1256 |
| BstNSI | RCATGY | 2 cut(s) | 1351, 1547 |
| BstSCI | CCNGG | 2 cut(s) | 757, 1254 |
| BstSFI | CTRYAG | 1 cut(s) | 213 |
| BstSLI | GKGCMC | 1 cut(s) | 1738 |
| BstV1I | GCAGC | 4 cut(s) | 136, 145, 1372, 1406 |
| BstV2I | GAAGAC | 2 cut(s) | 255, 627 |
| BstXI | CCANNNNNNTGG | 1 cut(s) | 1337 |
| Bsu36I | CCTNAGG | 1 cut(s) | 679 |
| BsuI | GTATCC | 3 cut(s) | 373, 1525, 1568 |
| BsuRI | GGCC | 2 cut(s) | 845, 949 |
| BtgZI | GCGATG | 1 cut(s) | 1223 |
| BtsCI | GGATG | 7 cut(s) | 128, 353, 479, 917, 1429, 1467, 1687 |
| BtsIMutI | CAGTG | 2 cut(s) | 531, 780 |
| BveI | ACCTGC | 1 cut(s) | 217 |
| Cac8I | GCNNGC | 7 cut(s) | 686, 690, 1024, 1515, 1524, 1673, 1734 |
| CaiI | CAGNNNCTG | 1 cut(s) | 1016 |
| Cfr10I | RCCGGY | 2 cut(s) | 190, 1351 |
| Cfr13I | GGNCC | 1 cut(s) | 948 |
| Csp6I | GTAC | 3 cut(s) | 1123, 1232, 1646 |
| CspAI | ACCGGT | 1 cut(s) | 190 |
| CviAII | CATG | 9 cut(s) | 898, 997, 1038, 1337, 1348, 1418, 1544, 1561, 1579 |
| CviQI | GTAC | 3 cut(s) | 1123, 1232, 1646 |
| DdeI | CTNAG | 9 cut(s) | 154, 258, 558, 679, 827, 858, 1275, 1494, 1689 |
| DpnI | GATC | 3 cut(s) | 76, 1036, 1061 |
| DpnII | GATC | 3 cut(s) | 74, 1034, 1059 |
| DrdI | GACNNNNNNGTC | 1 cut(s) | 1618 |
| DseDI | GACNNNNNNGTC | 1 cut(s) | 1618 |
| EaeI | YGGCCR | 1 cut(s) | 843 |
| Eam1104I | CTCTTC | 3 cut(s) | 139, 863, 1141 |
| EarI | CTCTTC | 3 cut(s) | 139, 863, 1141 |
| EciI | GGCGGA | 2 cut(s) | 558, 639 |
| Eco32I | GATATC | 1 cut(s) | 1453 |
| Eco57I | CTGAAG | 2 cut(s) | 600, 1230 |
| Eco81I | CCTNAGG | 1 cut(s) | 679 |
| EcoO109I | RGGNCCY | 1 cut(s) | 948 |
| EcoRI | GAATTC | 2 cut(s) | 925, 992 |
| EcoRII | CCWGG | 2 cut(s) | 757, 1254 |
| EcoRV | GATATC | 1 cut(s) | 1453 |
| EcoT22I | ATGCAT | 1 cut(s) | 469 |
| FaeI | CATG | 9 cut(s) | 901, 1000, 1041, 1340, 1351, 1421, 1547, 1564, 1582 |
| FatI | CATG | 9 cut(s) | 897, 996, 1037, 1336, 1347, 1417, 1543, 1560, 1578 |
| FauNDI | CATATG | 1 cut(s) | 1048 |
| FblI | GTMKAC | 1 cut(s) | 1296 |
| Fnu4HI | GCNGC | 5 cut(s) | 150, 159, 345, 1386, 1395 |
| FokI | GGATG | 7 cut(s) | 115, 340, 466, 904, 1416, 1454, 1694 |
| Fsp4HI | GCNGC | 5 cut(s) | 150, 159, 345, 1386, 1395 |
| FspBI | CTAG | 4 cut(s) | 1371, 1523, 1727, 1743 |
| GluI | GCNGC | 5 cut(s) | 150, 159, 345, 1386, 1395 |
| GsaI | CCCAGC | 1 cut(s) | 305 |
| GsuI | CTGGAG | 8 cut(s) | 129, 153, 273, 441, 804, 942, 1038, 1569 |
| HaeIII | GGCC | 2 cut(s) | 845, 949 |
| HapII | CCGG | 3 cut(s) | 191, 341, 1352 |
| Hin1II | CATG | 9 cut(s) | 901, 1000, 1041, 1340, 1351, 1421, 1547, 1564, 1582 |
| HincII | GTYRAC | 2 cut(s) | 723, 1611 |
| HindII | GTYRAC | 2 cut(s) | 723, 1611 |
| HinfI | GANTC | 8 cut(s) | 107, 386, 886, 932, 1013, 1090, 1374, 1557 |
| HpaII | CCGG | 3 cut(s) | 191, 341, 1352 |
| Hpy188I | TCNGA | 8 cut(s) | 64, 424, 699, 931, 1012, 1205, 1276, 1624 |
| Hpy188III | TCNNGA | 7 cut(s) | 381, 1017, 1032, 1343, 1475, 1586, 1727 |
| HpyAV | CCTTC | 9 cut(s) | 30, 48, 486, 624, 912, 1097, 1331, 1481, 1749 |
| HpyCH4III | ACNGT | 3 cut(s) | 126, 535, 1268 |
| HpyCH4IV | ACGT | 1 cut(s) | 1195 |
| HpyF10VI | GCNNNNNNNGC | 9 cut(s) | 155, 158, 350, 1391, 1394, 1434, 1499, 1519, 1523 |
| HpyF3I | CTNAG | 9 cut(s) | 154, 258, 558, 679, 827, 858, 1275, 1494, 1689 |
| HpySE526I | ACGT | 1 cut(s) | 1195 |
| Hsp92II | CATG | 9 cut(s) | 901, 1000, 1041, 1340, 1351, 1421, 1547, 1564, 1582 |
| Kzo9I | GATC | 3 cut(s) | 74, 1034, 1059 |
| LmnI | GCTCC | 6 cut(s) | 166, 571, 652, 788, 1019, 1588 |
| Lsp1109I | GCAGC | 4 cut(s) | 136, 145, 1372, 1406 |
| LweI | GCATC | 7 cut(s) | 227, 314, 362, 454, 476, 721, 1288 |
| MaeI | CTAG | 4 cut(s) | 1371, 1523, 1727, 1743 |
| MaeII | ACGT | 1 cut(s) | 1195 |
| MaeIII | GTNAC | 4 cut(s) | 535, 739, 1262, 1546 |
| MalI | GATC | 3 cut(s) | 76, 1036, 1061 |
| MboI | GATC | 3 cut(s) | 74, 1034, 1059 |
| MfeI | CAATTG | 1 cut(s) | 798 |
| MhlI | GDGCHC | 2 cut(s) | 828, 1738 |
| MlyI | GAGTC | 4 cut(s) | 380, 1022, 1383, 1566 |
| MmeI | TCCRAC | 3 cut(s) | 305, 344, 722 |
| Mph1103I | ATGCAT | 1 cut(s) | 469 |
| MroXI | GAANNNNTTC | 1 cut(s) | 979 |
| MseI | TTAA | 2 cut(s) | 777, 1161 |
| MslI | CAYNNNNRTG | 1 cut(s) | 1335 |
| MspA1I | CMGCKG | 4 cut(s) | 149, 158, 461, 578 |
| MspI | CCGG | 3 cut(s) | 191, 341, 1352 |
| MspR9I | CCNGG | 2 cut(s) | 759, 1256 |
| MunI | CAATTG | 1 cut(s) | 798 |
| MvaI | CCWGG | 2 cut(s) | 759, 1256 |
| MwoI | GCNNNNNNNGC | 9 cut(s) | 155, 158, 350, 1391, 1394, 1434, 1499, 1519, 1523 |
| NdeI | CATATG | 1 cut(s) | 1048 |
| NdeII | GATC | 3 cut(s) | 74, 1034, 1059 |
| NheI | GCTAGC | 1 cut(s) | 1522 |
| NlaIII | CATG | 9 cut(s) | 901, 1000, 1041, 1340, 1351, 1421, 1547, 1564, 1582 |
| NlaIV | GGNNCC | 3 cut(s) | 348, 950, 1584 |
| NsiI | ATGCAT | 1 cut(s) | 469 |
| NspI | RCATGY | 2 cut(s) | 1351, 1547 |
| NspV | TTCGAA | 1 cut(s) | 1082 |
| PaqCI | CACCTGC | 1 cut(s) | 217 |
| PciI | ACATGT | 1 cut(s) | 1543 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 1201 |
| PdmI | GAANNNNTTC | 1 cut(s) | 979 |
| PfeI | GAWTC | 4 cut(s) | 107, 886, 932, 1090 |
| PinAI | ACCGGT | 1 cut(s) | 190 |
| PkrI | GCNGC | 5 cut(s) | 151, 160, 346, 1387, 1396 |
| PleI | GAGTC | 4 cut(s) | 380, 1021, 1382, 1565 |
| PpsI | GAGTC | 4 cut(s) | 380, 1021, 1382, 1565 |
| PscI | ACATGT | 1 cut(s) | 1543 |
| Psp6I | CCWGG | 2 cut(s) | 757, 1254 |
| PspFI | CCCAGC | 1 cut(s) | 301 |
| PspGI | CCWGG | 2 cut(s) | 757, 1254 |
| PspN4I | GGNNCC | 3 cut(s) | 348, 950, 1584 |
| PspPI | GGNCC | 1 cut(s) | 948 |
| PstNI | CAGNNNCTG | 1 cut(s) | 1016 |
| PvuII | CAGCTG | 4 cut(s) | 149, 158, 461, 578 |
| RsaI | GTAC | 3 cut(s) | 1124, 1233, 1647 |
| RsaNI | GTAC | 3 cut(s) | 1123, 1232, 1646 |
| RseI | CAYNNNNRTG | 1 cut(s) | 1335 |
| SaqAI | TTAA | 2 cut(s) | 777, 1161 |
| SatI | GCNGC | 5 cut(s) | 150, 159, 345, 1386, 1395 |
| Sau3AI | GATC | 3 cut(s) | 74, 1034, 1059 |
| Sau96I | GGNCC | 1 cut(s) | 948 |
| SchI | GAGTC | 4 cut(s) | 380, 1022, 1383, 1566 |
| ScrFI | CCNGG | 2 cut(s) | 759, 1256 |
| SduI | GDGCHC | 2 cut(s) | 828, 1738 |
| SfaNI | GCATC | 7 cut(s) | 227, 314, 362, 454, 476, 721, 1288 |
| SfcI | CTRYAG | 1 cut(s) | 213 |
| SfuI | TTCGAA | 1 cut(s) | 1082 |
| SmiMI | CAYNNNNRTG | 1 cut(s) | 1335 |
| SsiI | CCGC | 9 cut(s) | 311, 344, 371, 434, 473, 494, 569, 611, 650 |
| SspMI | CTAG | 4 cut(s) | 1371, 1523, 1727, 1743 |
| StyD4I | CCNGG | 2 cut(s) | 757, 1254 |
| TaaI | ACNGT | 3 cut(s) | 126, 535, 1268 |
| TaiI | ACGT | 1 cut(s) | 1198 |
| TaqI | TCGA | 3 cut(s) | 884, 1082, 1228 |
| TatI | WGTACW | 3 cut(s) | 1122, 1231, 1645 |
| TauI | GCSGC | 1 cut(s) | 347 |
| TfiI | GAWTC | 4 cut(s) | 107, 886, 932, 1090 |
| Tru1I | TTAA | 2 cut(s) | 777, 1161 |
| Tru9I | TTAA | 2 cut(s) | 777, 1161 |
| TscAI | CASTG | 2 cut(s) | 538, 787 |
| TseI | GCWGC | 4 cut(s) | 149, 158, 1385, 1394 |
| TspGWI | ACGGA | 1 cut(s) | 925 |
| TspRI | CASTG | 2 cut(s) | 538, 787 |
| VneI | GTGCAC | 1 cut(s) | 1734 |
| XapI | RAATTY | 4 cut(s) | 28, 82, 925, 992 |
| XbaI | TCTAGA | 1 cut(s) | 1726 |
| XceI | RCATGY | 2 cut(s) | 1351, 1547 |
| XcmI | CCANNNNNNNNNTGG | 2 cut(s) | 1070, 1558 |
| XmiI | GTMKAC | 1 cut(s) | 1296 |
| XmnI | GAANNNNTTC | 1 cut(s) | 979 |
| XspI | CTAG | 4 cut(s) | 1371, 1523, 1727, 1743 |
| Zsp2I | ATGCAT | 1 cut(s) | 469 |