gag-polypeptide of LTR copia-type
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| SH3_retrovirus | PF25597 | 488 - 538 | 7.6e-09 | Retroviral polymerase SH3-like domain |
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) |
|---|---|---|---|
| AanI | TTATAA | 1 cut(s) | 1290 |
| Acc36I | ACCTGC | 3 cut(s) | 411, 705, 987 |
| AccI | GTMKAC | 2 cut(s) | 1366, 1685 |
| AciI | CCGC | 3 cut(s) | 61, 1054, 1787 |
| AclWI | GGATC | 3 cut(s) | 1186, 1420, 1433 |
| AcsI | RAATTY | 7 cut(s) | 36, 118, 1030, 1284, 1528, 1544, 1766 |
| AcuI | CTGAAG | 4 cut(s) | 791, 978, 1088, 1317 |
| AfaI | GTAC | 2 cut(s) | 1122, 1439 |
| AfiI | CCNNNNNNNGG | 3 cut(s) | 87, 382, 676 |
| AflII | CTTAAG | 2 cut(s) | 893, 1187 |
| AflIII | ACRYGT | 2 cut(s) | 495, 1123 |
| AgeI | ACCGGT | 1 cut(s) | 107 |
| AhlI | ACTAGT | 1 cut(s) | 1565 |
| AjnI | CCWGG | 1 cut(s) | 1269 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 1752, 1784 |
| Alw21I | GWGCWC | 1 cut(s) | 885 |
| Alw26I | GTCTC | 1 cut(s) | 1068 |
| AlwI | GGATC | 3 cut(s) | 1186, 1420, 1433 |
| AoxI | GGCC | 3 cut(s) | 137, 1055, 1256 |
| ApeKI | GCWGC | 5 cut(s) | 152, 469, 763, 1155, 1826 |
| ApoI | RAATTY | 7 cut(s) | 36, 118, 1030, 1284, 1528, 1544, 1766 |
| AsiGI | ACCGGT | 1 cut(s) | 107 |
| AspS9I | GGNCC | 6 cut(s) | 58, 74, 94, 110, 138, 1394 |
| AsuC2I | CCSGG | 3 cut(s) | 98, 136, 141 |
| AsuII | TTCGAA | 1 cut(s) | 1490 |
| AvaII | GGWCC | 5 cut(s) | 58, 74, 94, 110, 1394 |
| BamHI | GGATCC | 1 cut(s) | 1425 |
| BauI | CACGAG | 1 cut(s) | 884 |
| BbsI | GAAGAC | 1 cut(s) | 905 |
| Bbv12I | GWGCWC | 1 cut(s) | 885 |
| BbvI | GCAGC | 5 cut(s) | 164, 456, 750, 1167, 1838 |
| BccI | CCATC | 5 cut(s) | 164, 454, 748, 854, 1603 |
| BciT130I | CCWGG | 1 cut(s) | 1271 |
| BclI | TGATCA | 1 cut(s) | 7 |
| BcnI | CCSGG | 3 cut(s) | 98, 136, 141 |
| BcoDI | GTCTC | 1 cut(s) | 1068 |
| BcuI | ACTAGT | 1 cut(s) | 1565 |
| BfaI | CTAG | 8 cut(s) | 260, 554, 744, 923, 1059, 1533, 1566, 1772 |
| BfmI | CTRYAG | 2 cut(s) | 404, 698 |
| BfrI | CTTAAG | 2 cut(s) | 893, 1187 |
| BfuAI | ACCTGC | 3 cut(s) | 411, 705, 987 |
| BisI | GCNGC | 6 cut(s) | 153, 470, 764, 1055, 1156, 1827 |
| BlpI | GCTNAGC | 1 cut(s) | 1104 |
| BlsI | GCNGC | 6 cut(s) | 154, 471, 765, 1056, 1157, 1828 |
| Bme1390I | CCNGG | 4 cut(s) | 98, 136, 141, 1271 |
| Bme18I | GGWCC | 5 cut(s) | 58, 74, 94, 110, 1394 |
| BmgT120I | GGNCC | 6 cut(s) | 58, 74, 94, 110, 138, 1394 |
| BmiI | GGNNCC | 4 cut(s) | 112, 1148, 1170, 1427 |
| BmrFI | CCNGG | 4 cut(s) | 98, 136, 141, 1271 |
| BmsI | GCATC | 4 cut(s) | 336, 630, 828, 1732 |
| BpiI | GAAGAC | 1 cut(s) | 905 |
| BpmI | CTGGAG | 1 cut(s) | 1117 |
| Bpu10I | CCTNAGC | 2 cut(s) | 249, 543 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 1104 |
| Bpu14I | TTCGAA | 1 cut(s) | 1490 |
| BpuEI | CTTGAG | 2 cut(s) | 1248, 1779 |
| BpuMI | CCSGG | 3 cut(s) | 98, 136, 141 |
| BsaBI | GATNNNNATC | 1 cut(s) | 818 |
| BsaJI | CCNNGG | 1 cut(s) | 1269 |
| BsaWI | WCCGGW | 1 cut(s) | 107 |
| Bsc4I | CCNNNNNNNGG | 3 cut(s) | 87, 382, 676 |
| Bse118I | RCCGGY | 1 cut(s) | 107 |
| Bse1I | ACTGG | 5 cut(s) | 236, 450, 530, 1100, 1811 |
| Bse3DI | GCAATG | 2 cut(s) | 329, 623 |
| Bse8I | GATNNNNATC | 1 cut(s) | 818 |
| BseBI | CCWGG | 1 cut(s) | 1271 |
| BseDI | CCNNGG | 1 cut(s) | 1269 |
| BseGI | GGATG | 4 cut(s) | 156, 327, 621, 862 |
| BseJI | GATNNNNATC | 1 cut(s) | 818 |
| BseLI | CCNNNNNNNGG | 3 cut(s) | 87, 382, 676 |
| BseMI | GCAATG | 2 cut(s) | 329, 623 |
| BseMII | CTCAG | 9 cut(s) | 33, 240, 534, 950, 1011, 1448, 1515, 1719, 1821 |
| BseNI | ACTGG | 5 cut(s) | 236, 450, 530, 1100, 1811 |
| BseRI | GAGGAG | 2 cut(s) | 1362, 1365 |
| BseXI | GCAGC | 5 cut(s) | 164, 456, 750, 1167, 1838 |
| BseYI | CCCAGC | 1 cut(s) | 828 |
| BsgI | GTGCAG | 4 cut(s) | 171, 455, 749, 1428 |
| BshFI | GGCC | 3 cut(s) | 139, 1057, 1258 |
| BshTI | ACCGGT | 1 cut(s) | 107 |
| BsiHKAI | GWGCWC | 1 cut(s) | 885 |
| BsiSI | CCGG | 4 cut(s) | 97, 108, 136, 141 |
| BslFI | GGGAC | 4 cut(s) | 96, 209, 1249, 1395 |
| BslI | CCNNNNNNNGG | 3 cut(s) | 87, 382, 676 |
| BsmAI | GTCTC | 1 cut(s) | 1068 |
| BsmFI | GGGAC | 4 cut(s) | 96, 209, 1249, 1395 |
| BsmI | GAATGC | 2 cut(s) | 1021, 1321 |
| BsnI | GGCC | 3 cut(s) | 139, 1057, 1258 |
| Bsp119I | TTCGAA | 1 cut(s) | 1490 |
| Bsp1286I | GDGCHC | 1 cut(s) | 885 |
| Bsp1407I | TGTACA | 1 cut(s) | 1120 |
| Bsp143I | GATC | 4 cut(s) | 7, 1191, 1337, 1425 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 1104 |
| BspACI | CCGC | 3 cut(s) | 61, 1054, 1787 |
| BspANI | GGCC | 3 cut(s) | 139, 1057, 1258 |
| BspCNI | CTCAG | 9 cut(s) | 34, 241, 535, 949, 1012, 1447, 1516, 1720, 1822 |
| BspLI | GGNNCC | 4 cut(s) | 112, 1148, 1170, 1427 |
| BspMAI | CTGCAG | 2 cut(s) | 408, 702 |
| BspMI | ACCTGC | 3 cut(s) | 411, 705, 987 |
| BspPI | GGATC | 3 cut(s) | 1186, 1420, 1433 |
| BspT104I | TTCGAA | 1 cut(s) | 1490 |
| BspTI | CTTAAG | 2 cut(s) | 893, 1187 |
| BsrDI | GCAATG | 2 cut(s) | 329, 623 |
| BsrFI | RCCGGY | 1 cut(s) | 107 |
| BsrGI | TGTACA | 1 cut(s) | 1120 |
| BsrI | ACTGG | 5 cut(s) | 236, 450, 530, 1100, 1811 |
| BssAI | RCCGGY | 1 cut(s) | 107 |
| BssECI | CCNNGG | 1 cut(s) | 1269 |
| BssMI | GATC | 4 cut(s) | 7, 1191, 1337, 1425 |
| BssSI | CACGAG | 1 cut(s) | 884 |
| Bst2BI | CACGAG | 1 cut(s) | 884 |
| Bst2UI | CCWGG | 1 cut(s) | 1271 |
| Bst4CI | ACNGT | 7 cut(s) | 361, 655, 1079, 1240, 1394, 1407, 1690 |
| Bst6I | CTCTTC | 2 cut(s) | 938, 1064 |
| BstAFI | CTTAAG | 2 cut(s) | 893, 1187 |
| BstAUI | TGTACA | 1 cut(s) | 1120 |
| BstBI | TTCGAA | 1 cut(s) | 1490 |
| BstC8I | GCNNGC | 1 cut(s) | 65 |
| BstEII | GGTNACC | 1 cut(s) | 1517 |
| BstF5I | GGATG | 4 cut(s) | 156, 327, 621, 862 |
| BstKTI | GATC | 4 cut(s) | 10, 1194, 1340, 1428 |
| BstMAI | GTCTC | 1 cut(s) | 1068 |
| BstMBI | GATC | 4 cut(s) | 7, 1191, 1337, 1425 |
| BstMWI | GCNNNNNNNGC | 3 cut(s) | 889, 979, 1161 |
| BstNI | CCWGG | 1 cut(s) | 1271 |
| BstNSI | RCATGY | 2 cut(s) | 499, 1127 |
| BstPI | GGTNACC | 1 cut(s) | 1517 |
| BstSCI | CCNGG | 4 cut(s) | 96, 134, 139, 1269 |
| BstSFI | CTRYAG | 2 cut(s) | 404, 698 |
| BstV1I | GCAGC | 5 cut(s) | 164, 456, 750, 1167, 1838 |
| BstV2I | GAAGAC | 1 cut(s) | 905 |
| BstX2I | RGATCY | 2 cut(s) | 1191, 1425 |
| BstXI | CCANNNNNNTGG | 1 cut(s) | 167 |
| BstYI | RGATCY | 2 cut(s) | 1191, 1425 |
| BsuRI | GGCC | 3 cut(s) | 139, 1057, 1258 |
| BtsCI | GGATG | 4 cut(s) | 156, 327, 621, 862 |
| BtsI | GCAGTG | 5 cut(s) | 413, 707, 1326, 1440, 1599 |
| BveI | ACCTGC | 3 cut(s) | 411, 705, 987 |
| Cac8I | GCNNGC | 1 cut(s) | 65 |
| Cfr10I | RCCGGY | 1 cut(s) | 107 |
| Cfr13I | GGNCC | 6 cut(s) | 58, 74, 94, 110, 138, 1394 |
| CpoI | CGGWCCG | 1 cut(s) | 94 |
| Csp6I | GTAC | 2 cut(s) | 1121, 1438 |
| CspAI | ACCGGT | 1 cut(s) | 107 |
| CspI | CGGWCCG | 1 cut(s) | 94 |
| CviQI | GTAC | 2 cut(s) | 1121, 1438 |
| DpnI | GATC | 4 cut(s) | 9, 1193, 1339, 1427 |
| DpnII | GATC | 4 cut(s) | 7, 1191, 1337, 1425 |
| DraI | TTTAAA | 1 cut(s) | 1543 |
| Eam1104I | CTCTTC | 2 cut(s) | 938, 1064 |
| EarI | CTCTTC | 2 cut(s) | 938, 1064 |
| Eco147I | AGGCCT | 1 cut(s) | 1258 |
| Eco47I | GGWCC | 5 cut(s) | 58, 74, 94, 110, 1394 |
| Eco57I | CTGAAG | 4 cut(s) | 791, 978, 1088, 1317 |
| Eco91I | GGTNACC | 1 cut(s) | 1517 |
| EcoO65I | GGTNACC | 1 cut(s) | 1517 |
| EcoRI | GAATTC | 1 cut(s) | 1528 |
| EcoRII | CCWGG | 1 cut(s) | 1269 |
| EcoT22I | ATGCAT | 2 cut(s) | 329, 623 |
| FalI | AAGNNNNNCTT | 2 cut(s) | 1101, 1133 |
| FaqI | GGGAC | 4 cut(s) | 96, 209, 1249, 1395 |
| FbaI | TGATCA | 1 cut(s) | 7 |
| FblI | GTMKAC | 2 cut(s) | 1366, 1685 |
| Fnu4HI | GCNGC | 6 cut(s) | 153, 470, 764, 1055, 1156, 1827 |
| FokI | GGATG | 4 cut(s) | 143, 314, 608, 869 |
| Fsp4HI | GCNGC | 6 cut(s) | 153, 470, 764, 1055, 1156, 1827 |
| FspBI | CTAG | 8 cut(s) | 260, 554, 744, 923, 1059, 1533, 1566, 1772 |
| GluI | GCNGC | 6 cut(s) | 153, 470, 764, 1055, 1156, 1827 |
| GsaI | CCCAGC | 1 cut(s) | 832 |
| GsuI | CTGGAG | 1 cut(s) | 1117 |
| HaeIII | GGCC | 3 cut(s) | 139, 1057, 1258 |
| HapII | CCGG | 4 cut(s) | 97, 108, 136, 141 |
| HpaII | CCGG | 4 cut(s) | 97, 108, 136, 141 |
| Hpy166II | GTNNAC | 3 cut(s) | 1367, 1440, 1686 |
| Hpy188III | TCNNGA | 5 cut(s) | 331, 625, 878, 1533, 1796 |
| Hpy8I | GTNNAC | 3 cut(s) | 1367, 1440, 1686 |
| HpyAV | CCTTC | 9 cut(s) | 49, 815, 946, 953, 997, 1269, 1372, 1566, 1731 |
| HpyCH4III | ACNGT | 7 cut(s) | 361, 655, 1079, 1240, 1394, 1407, 1690 |
| HpyF10VI | GCNNNNNNNGC | 3 cut(s) | 889, 979, 1161 |
| Ksp22I | TGATCA | 1 cut(s) | 7 |
| Kzo9I | GATC | 4 cut(s) | 7, 1191, 1337, 1425 |
| LmnI | GCTCC | 2 cut(s) | 796, 1168 |
| Lsp1109I | GCAGC | 5 cut(s) | 164, 456, 750, 1167, 1838 |
| LweI | GCATC | 4 cut(s) | 336, 630, 828, 1732 |
| MaeI | CTAG | 8 cut(s) | 260, 554, 744, 923, 1059, 1533, 1566, 1772 |
| MaeIII | GTNAC | 5 cut(s) | 836, 925, 1130, 1517, 1705 |
| MalI | GATC | 4 cut(s) | 9, 1193, 1339, 1427 |
| MboI | GATC | 4 cut(s) | 7, 1191, 1337, 1425 |
| MboII | GAAGA | 5 cut(s) | 910, 955, 1081, 1188, 1658 |
| MfeI | CAATTG | 1 cut(s) | 1575 |
| MflI | RGATCY | 2 cut(s) | 1191, 1425 |
| MhlI | GDGCHC | 1 cut(s) | 885 |
| MlyI | GAGTC | 5 cut(s) | 301, 455, 595, 749, 1484 |
| MmeI | TCCRAC | 1 cut(s) | 184 |
| Mph1103I | ATGCAT | 2 cut(s) | 329, 623 |
| MslI | CAYNNNNRTG | 4 cut(s) | 15, 494, 788, 1214 |
| MspA1I | CMGCKG | 1 cut(s) | 1829 |
| MspCI | CTTAAG | 2 cut(s) | 893, 1187 |
| MspI | CCGG | 4 cut(s) | 97, 108, 136, 141 |
| MspR9I | CCNGG | 4 cut(s) | 98, 136, 141, 1271 |
| MunI | CAATTG | 1 cut(s) | 1575 |
| Mva1269I | GAATGC | 2 cut(s) | 1021, 1321 |
| MvaI | CCWGG | 1 cut(s) | 1271 |
| MwoI | GCNNNNNNNGC | 3 cut(s) | 889, 979, 1161 |
| NciI | CCSGG | 3 cut(s) | 98, 136, 141 |
| NdeII | GATC | 4 cut(s) | 7, 1191, 1337, 1425 |
| NlaIV | GGNNCC | 4 cut(s) | 112, 1148, 1170, 1427 |
| NmuCI | GTSAC | 2 cut(s) | 836, 925 |
| NsiI | ATGCAT | 2 cut(s) | 329, 623 |
| NspI | RCATGY | 2 cut(s) | 499, 1127 |
| NspV | TTCGAA | 1 cut(s) | 1490 |
| PceI | AGGCCT | 1 cut(s) | 1258 |
| PciI | ACATGT | 2 cut(s) | 495, 1123 |
| PctI | GAATGC | 2 cut(s) | 1021, 1321 |
| PfeI | GAWTC | 6 cut(s) | 217, 269, 511, 563, 919, 1487 |
| PinAI | ACCGGT | 1 cut(s) | 107 |
| PkrI | GCNGC | 6 cut(s) | 154, 471, 765, 1056, 1157, 1828 |
| PleI | GAGTC | 5 cut(s) | 300, 454, 594, 748, 1483 |
| PpsI | GAGTC | 5 cut(s) | 300, 454, 594, 748, 1483 |
| PscI | ACATGT | 2 cut(s) | 495, 1123 |
| PsiI | TTATAA | 1 cut(s) | 1290 |
| Psp6I | CCWGG | 1 cut(s) | 1269 |
| PspEI | GGTNACC | 1 cut(s) | 1517 |
| PspFI | CCCAGC | 1 cut(s) | 828 |
| PspGI | CCWGG | 1 cut(s) | 1269 |
| PspN4I | GGNNCC | 4 cut(s) | 112, 1148, 1170, 1427 |
| PspPI | GGNCC | 6 cut(s) | 58, 74, 94, 110, 138, 1394 |
| PstI | CTGCAG | 2 cut(s) | 408, 702 |
| PsuI | RGATCY | 2 cut(s) | 1191, 1425 |
| PvuII | CAGCTG | 1 cut(s) | 1829 |
| RsaI | GTAC | 2 cut(s) | 1122, 1439 |
| RsaNI | GTAC | 2 cut(s) | 1121, 1438 |
| RseI | CAYNNNNRTG | 4 cut(s) | 15, 494, 788, 1214 |
| Rsr2I | CGGWCCG | 1 cut(s) | 94 |
| RsrII | CGGWCCG | 1 cut(s) | 94 |
| SatI | GCNGC | 6 cut(s) | 153, 470, 764, 1055, 1156, 1827 |
| Sau3AI | GATC | 4 cut(s) | 7, 1191, 1337, 1425 |
| Sau96I | GGNCC | 6 cut(s) | 58, 74, 94, 110, 138, 1394 |
| SchI | GAGTC | 5 cut(s) | 301, 455, 595, 749, 1484 |
| ScrFI | CCNGG | 4 cut(s) | 98, 136, 141, 1271 |
| SduI | GDGCHC | 1 cut(s) | 885 |
| SfaNI | GCATC | 4 cut(s) | 336, 630, 828, 1732 |
| SfcI | CTRYAG | 2 cut(s) | 404, 698 |
| SfuI | TTCGAA | 1 cut(s) | 1490 |
| SinI | GGWCC | 5 cut(s) | 58, 74, 94, 110, 1394 |
| SmiMI | CAYNNNNRTG | 4 cut(s) | 15, 494, 788, 1214 |
| SmlI | CTYRAG | 4 cut(s) | 893, 1187, 1263, 1794 |
| SmoI | CTYRAG | 4 cut(s) | 893, 1187, 1263, 1794 |
| SpeI | ACTAGT | 1 cut(s) | 1565 |
| SseBI | AGGCCT | 1 cut(s) | 1258 |
| SsiI | CCGC | 3 cut(s) | 61, 1054, 1787 |
| SspI | AATATT | 1 cut(s) | 1358 |
| SspMI | CTAG | 8 cut(s) | 260, 554, 744, 923, 1059, 1533, 1566, 1772 |
| StuI | AGGCCT | 1 cut(s) | 1258 |
| StyD4I | CCNGG | 4 cut(s) | 96, 134, 139, 1269 |
| TaaI | ACNGT | 7 cut(s) | 361, 655, 1079, 1240, 1394, 1407, 1690 |
| TaqI | TCGA | 2 cut(s) | 1490, 1695 |
| TaqII | GACCGA | 1 cut(s) | 82 |
| TatI | WGTACW | 2 cut(s) | 1120, 1437 |
| TauI | GCSGC | 1 cut(s) | 1057 |
| TfiI | GAWTC | 6 cut(s) | 217, 269, 511, 563, 919, 1487 |
| TseFI | GTSAC | 2 cut(s) | 836, 925 |
| TseI | GCWGC | 5 cut(s) | 152, 469, 763, 1155, 1826 |
| Tsp45I | GTSAC | 2 cut(s) | 836, 925 |
| TspDTI | ATGAA | 8 cut(s) | 294, 506, 588, 800, 1016, 1501, 1703, 1779 |
| Vha464I | CTTAAG | 2 cut(s) | 893, 1187 |
| VpaK11BI | GGWCC | 5 cut(s) | 58, 74, 94, 110, 1394 |
| XapI | RAATTY | 7 cut(s) | 36, 118, 1030, 1284, 1528, 1544, 1766 |
| XbaI | TCTAGA | 1 cut(s) | 1532 |
| XceI | RCATGY | 2 cut(s) | 499, 1127 |
| XcmI | CCANNNNNNNNNTGG | 3 cut(s) | 84, 457, 1202 |
| XmiI | GTMKAC | 2 cut(s) | 1366, 1685 |
| XspI | CTAG | 8 cut(s) | 260, 554, 744, 923, 1059, 1533, 1566, 1772 |
| Zsp2I | ATGCAT | 2 cut(s) | 329, 623 |