Protein kinase domain
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Pol_BBD | PF22936 | 61 - 137 | 5.4e-13 | Pol polyprotein, beta-barrel domain |
| gag_pre-integrs | PF13976 | 168 - 231 | 2.1e-08 | GAG-pre-integrase domain |
| rve | PF00665 | 250 - 343 | 1.4e-13 | Integrase core domain |
| SH3_retrovirus | PF25597 | 418 - 477 | 1.5e-20 | Retroviral polymerase SH3-like domain |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AarI | CACCTGC | 1 cut(s) | 1509 |
| Acc36I | ACCTGC | 2 cut(s) | 1429, 1509 |
| AccB1I | GGYRCC | 1 cut(s) | 305 |
| AccIII | TCCGGA | 1 cut(s) | 903 |
| AciI | CCGC | 3 cut(s) | 129, 512, 1490 |
| AclWI | GGATC | 8 cut(s) | 167, 321, 334, 649, 895, 1358, 1451, 1597 |
| AcsI | RAATTY | 2 cut(s) | 1450, 1466 |
| AfaI | GTAC | 3 cut(s) | 169, 824, 1087 |
| AfiI | CCNNNNNNNGG | 4 cut(s) | 149, 194, 248, 1271 |
| AgsI | TTSAA | 3 cut(s) | 230, 796, 884 |
| AhlI | ACTAGT | 1 cut(s) | 38 |
| AleI | CACNNNNGTG | 1 cut(s) | 984 |
| AluBI | AGCT | 2 cut(s) | 155, 1120 |
| AluI | AGCT | 2 cut(s) | 155, 1120 |
| Alw21I | GWGCWC | 2 cut(s) | 157, 810 |
| Alw26I | GTCTC | 4 cut(s) | 105, 479, 573, 1477 |
| AlwI | GGATC | 8 cut(s) | 167, 321, 334, 649, 895, 1358, 1451, 1597 |
| Aor13HI | TCCGGA | 1 cut(s) | 903 |
| AoxI | GGCC | 3 cut(s) | 1080, 1494, 1534 |
| ApoI | RAATTY | 2 cut(s) | 1450, 1466 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 457, 489 |
| AseI | ATTAAT | 1 cut(s) | 1158 |
| AspLEI | GCGC | 3 cut(s) | 200, 680, 855 |
| AspS9I | GGNCC | 5 cut(s) | 488, 1081, 1274, 1495, 1535 |
| AsuHPI | GGTGA | 5 cut(s) | 284, 532, 865, 1331, 1560 |
| AvaII | GGWCC | 2 cut(s) | 488, 1274 |
| AxyI | CCTNAGG | 1 cut(s) | 322 |
| BamHI | GGATCC | 1 cut(s) | 326 |
| BanI | GGYRCC | 1 cut(s) | 305 |
| BanII | GRGCYC | 2 cut(s) | 157, 1511 |
| BbsI | GAAGAC | 1 cut(s) | 1328 |
| Bbv12I | GWGCWC | 2 cut(s) | 157, 810 |
| BbvCI | CCTCAGC | 1 cut(s) | 1128 |
| BccI | CCATC | 8 cut(s) | 77, 269, 494, 718, 1568, 1579, 1605, 1628 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 1591, 1625 |
| BciVI | GTATCC | 2 cut(s) | 195, 1010 |
| BclI | TGATCA | 1 cut(s) | 1213 |
| BcoDI | GTCTC | 4 cut(s) | 105, 479, 573, 1477 |
| BcuI | ACTAGT | 1 cut(s) | 38 |
| BfaI | CTAG | 5 cut(s) | 39, 123, 165, 1104, 1287 |
| BfmI | CTRYAG | 1 cut(s) | 1461 |
| BfoI | RGCGCY | 1 cut(s) | 201 |
| BfuAI | ACCTGC | 2 cut(s) | 1429, 1509 |
| BfuI | GTATCC | 2 cut(s) | 195, 1010 |
| BmcAI | AGTACT | 1 cut(s) | 169 |
| Bme18I | GGWCC | 2 cut(s) | 488, 1274 |
| BmgT120I | GGNCC | 5 cut(s) | 488, 1081, 1274, 1495, 1535 |
| BmiI | GGNNCC | 3 cut(s) | 307, 328, 489 |
| BmrI | ACTGGG | 1 cut(s) | 1195 |
| BmsI | GCATC | 1 cut(s) | 1292 |
| BmuI | ACTGGG | 1 cut(s) | 1195 |
| BpiI | GAAGAC | 1 cut(s) | 1328 |
| BpmI | CTGGAG | 2 cut(s) | 171, 316 |
| Bpu10I | CCTNAGC | 2 cut(s) | 586, 1128 |
| BpuEI | CTTGAG | 2 cut(s) | 42, 1098 |
| BsaAI | YACGTR | 1 cut(s) | 347 |
| BsaJI | CCNNGG | 3 cut(s) | 888, 993, 1511 |
| BsaWI | WCCGGW | 1 cut(s) | 903 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 124, 154 |
| Bsc4I | CCNNNNNNNGG | 4 cut(s) | 149, 194, 248, 1271 |
| Bse118I | RCCGGY | 1 cut(s) | 194 |
| Bse1I | ACTGG | 6 cut(s) | 290, 307, 333, 472, 793, 1190 |
| Bse21I | CCTNAGG | 1 cut(s) | 322 |
| BseAI | TCCGGA | 1 cut(s) | 903 |
| BseDI | CCNNGG | 3 cut(s) | 888, 993, 1511 |
| BseGI | GGATG | 5 cut(s) | 69, 592, 1517, 1597, 1620 |
| BseLI | CCNNNNNNNGG | 4 cut(s) | 149, 194, 248, 1271 |
| BseMII | CTCAG | 2 cut(s) | 1119, 1545 |
| BseNI | ACTGG | 6 cut(s) | 290, 307, 333, 472, 793, 1190 |
| BseRI | GAGGAG | 3 cut(s) | 129, 1101, 1185 |
| BseYI | CCCAGC | 1 cut(s) | 1624 |
| BshFI | GGCC | 3 cut(s) | 1082, 1496, 1536 |
| BshNI | GGYRCC | 1 cut(s) | 305 |
| BsiHKAI | GWGCWC | 2 cut(s) | 157, 810 |
| BsiSI | CCGG | 2 cut(s) | 195, 904 |
| BslFI | GGGAC | 1 cut(s) | 1202 |
| BslI | CCNNNNNNNGG | 4 cut(s) | 149, 194, 248, 1271 |
| BsmAI | GTCTC | 4 cut(s) | 105, 479, 573, 1477 |
| BsmBI | CGTCTC | 2 cut(s) | 479, 573 |
| BsmFI | GGGAC | 1 cut(s) | 1202 |
| BsmI | GAATGC | 1 cut(s) | 971 |
| BsnI | GGCC | 3 cut(s) | 1082, 1496, 1536 |
| Bsp1286I | GDGCHC | 3 cut(s) | 157, 810, 1511 |
| Bsp13I | TCCGGA | 1 cut(s) | 903 |
| Bsp143I | GATC | 8 cut(s) | 172, 326, 641, 900, 1213, 1363, 1456, 1602 |
| Bsp19I | CCATGG | 1 cut(s) | 1511 |
| BspACI | CCGC | 3 cut(s) | 129, 512, 1490 |
| BspANI | GGCC | 3 cut(s) | 1082, 1496, 1536 |
| BspCNI | CTCAG | 2 cut(s) | 1120, 1544 |
| BspEI | TCCGGA | 1 cut(s) | 903 |
| BspLI | GGNNCC | 3 cut(s) | 307, 328, 489 |
| BspMI | ACCTGC | 2 cut(s) | 1429, 1509 |
| BspPI | GGATC | 8 cut(s) | 167, 321, 334, 649, 895, 1358, 1451, 1597 |
| BspT107I | GGYRCC | 1 cut(s) | 305 |
| BsrFI | RCCGGY | 1 cut(s) | 194 |
| BsrI | ACTGG | 6 cut(s) | 290, 307, 333, 472, 793, 1190 |
| BssAI | RCCGGY | 1 cut(s) | 194 |
| BssECI | CCNNGG | 3 cut(s) | 888, 993, 1511 |
| BssMI | GATC | 8 cut(s) | 172, 326, 641, 900, 1213, 1363, 1456, 1602 |
| BssT1I | CCWWGG | 3 cut(s) | 888, 993, 1511 |
| Bst4CI | ACNGT | 6 cut(s) | 14, 538, 559, 986, 1334, 1355 |
| Bst6I | CTCTTC | 4 cut(s) | 231, 607, 1242, 1488 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 675 |
| BstBAI | YACGTR | 1 cut(s) | 347 |
| BstC8I | GCNNGC | 2 cut(s) | 550, 1494 |
| BstDEI | CTNAG | 4 cut(s) | 322, 586, 1128, 1531 |
| BstDSI | CCRYGG | 1 cut(s) | 1511 |
| BstEII | GGTNACC | 1 cut(s) | 1349 |
| BstF5I | GGATG | 5 cut(s) | 69, 592, 1517, 1597, 1620 |
| BstH2I | RGCGCY | 1 cut(s) | 201 |
| BstHHI | GCGC | 3 cut(s) | 200, 680, 855 |
| BstKTI | GATC | 8 cut(s) | 175, 329, 644, 903, 1216, 1366, 1459, 1605 |
| BstMAI | GTCTC | 4 cut(s) | 105, 479, 573, 1477 |
| BstMBI | GATC | 8 cut(s) | 172, 326, 641, 900, 1213, 1363, 1456, 1602 |
| BstMWI | GCNNNNNNNGC | 3 cut(s) | 128, 675, 1079 |
| BstNSI | RCATGY | 1 cut(s) | 552 |
| BstPI | GGTNACC | 1 cut(s) | 1349 |
| BstSFI | CTRYAG | 1 cut(s) | 1461 |
| BstSNI | TACGTA | 1 cut(s) | 347 |
| BstV2I | GAAGAC | 1 cut(s) | 1328 |
| BstX2I | RGATCY | 2 cut(s) | 326, 641 |
| BstXI | CCANNNNNNTGG | 1 cut(s) | 1040 |
| BstYI | RGATCY | 2 cut(s) | 326, 641 |
| Bsu36I | CCTNAGG | 1 cut(s) | 322 |
| BsuI | GTATCC | 2 cut(s) | 195, 1010 |
| BsuRI | GGCC | 3 cut(s) | 1082, 1496, 1536 |
| BtgI | CCRYGG | 1 cut(s) | 1511 |
| BtgZI | GCGATG | 1 cut(s) | 1046 |
| BtsCI | GGATG | 5 cut(s) | 69, 592, 1517, 1597, 1620 |
| BtsIMutI | CAGTG | 1 cut(s) | 786 |
| BveI | ACCTGC | 2 cut(s) | 1429, 1509 |
| Cac8I | GCNNGC | 2 cut(s) | 550, 1494 |
| CfoI | GCGC | 3 cut(s) | 200, 680, 855 |
| Cfr10I | RCCGGY | 1 cut(s) | 194 |
| Cfr13I | GGNCC | 5 cut(s) | 488, 1081, 1274, 1495, 1535 |
| CseI | GACGC | 2 cut(s) | 36, 978 |
| Csp6I | GTAC | 3 cut(s) | 168, 823, 1086 |
| CviQI | GTAC | 3 cut(s) | 168, 823, 1086 |
| DdeI | CTNAG | 4 cut(s) | 322, 586, 1128, 1531 |
| DpnI | GATC | 8 cut(s) | 174, 328, 643, 902, 1215, 1365, 1458, 1604 |
| DpnII | GATC | 8 cut(s) | 172, 326, 641, 900, 1213, 1363, 1456, 1602 |
| Eam1104I | CTCTTC | 4 cut(s) | 231, 607, 1242, 1488 |
| EarI | CTCTTC | 4 cut(s) | 231, 607, 1242, 1488 |
| Ecl136II | GAGCTC | 1 cut(s) | 155 |
| Eco105I | TACGTA | 1 cut(s) | 347 |
| Eco130I | CCWWGG | 3 cut(s) | 888, 993, 1511 |
| Eco24I | GRGCYC | 2 cut(s) | 157, 1511 |
| Eco47I | GGWCC | 2 cut(s) | 488, 1274 |
| Eco53kI | GAGCTC | 1 cut(s) | 155 |
| Eco81I | CCTNAGG | 1 cut(s) | 322 |
| Eco91I | GGTNACC | 1 cut(s) | 1349 |
| EcoICRI | GAGCTC | 1 cut(s) | 155 |
| EcoO65I | GGTNACC | 1 cut(s) | 1349 |
| EcoT14I | CCWWGG | 3 cut(s) | 888, 993, 1511 |
| EcoT22I | ATGCAT | 1 cut(s) | 550 |
| EcoT38I | GRGCYC | 2 cut(s) | 157, 1511 |
| ErhI | CCWWGG | 3 cut(s) | 888, 993, 1511 |
| Esp3I | CGTCTC | 2 cut(s) | 479, 573 |
| FalI | AAGNNNNNCTT | 5 cut(s) | 399, 431, 489, 521, 1629 |
| FaqI | GGGAC | 1 cut(s) | 1202 |
| FauI | CCCGC | 1 cut(s) | 136 |
| FbaI | TGATCA | 1 cut(s) | 1213 |
| FokI | GGATG | 5 cut(s) | 56, 579, 1504, 1584, 1607 |
| FriOI | GRGCYC | 2 cut(s) | 157, 1511 |
| FspBI | CTAG | 5 cut(s) | 39, 123, 165, 1104, 1287 |
| GlaI | GCGC | 3 cut(s) | 199, 679, 854 |
| GsaI | CCCAGC | 1 cut(s) | 1628 |
| GsuI | CTGGAG | 2 cut(s) | 171, 316 |
| HaeII | RGCGCY | 1 cut(s) | 201 |
| HaeIII | GGCC | 3 cut(s) | 1082, 1496, 1536 |
| HapII | CCGG | 2 cut(s) | 195, 904 |
| HgaI | GACGC | 2 cut(s) | 36, 978 |
| HhaI | GCGC | 3 cut(s) | 200, 680, 855 |
| Hin6I | GCGC | 3 cut(s) | 198, 678, 853 |
| HinP1I | GCGC | 3 cut(s) | 198, 678, 853 |
| HinfI | GANTC | 5 cut(s) | 55, 530, 964, 1380, 1529 |
| HpaII | CCGG | 2 cut(s) | 195, 904 |
| HphI | GGTGA | 5 cut(s) | 284, 532, 865, 1331, 1560 |
| Hpy166II | GTNNAC | 3 cut(s) | 534, 562, 1150 |
| Hpy188I | TCNGA | 3 cut(s) | 634, 1456, 1602 |
| Hpy188III | TCNNGA | 6 cut(s) | 188, 497, 904, 1115, 1181, 1361 |
| Hpy8I | GTNNAC | 3 cut(s) | 534, 562, 1150 |
| HpyAV | CCTTC | 4 cut(s) | 28, 320, 606, 1233 |
| HpyCH4III | ACNGT | 6 cut(s) | 14, 538, 559, 986, 1334, 1355 |
| HpyCH4IV | ACGT | 1 cut(s) | 346 |
| HpyCH4V | TGCA | 4 cut(s) | 548, 669, 1283, 1438 |
| HpyF10VI | GCNNNNNNNGC | 3 cut(s) | 128, 675, 1079 |
| HpyF3I | CTNAG | 4 cut(s) | 322, 586, 1128, 1531 |
| HpySE526I | ACGT | 1 cut(s) | 346 |
| HspAI | GCGC | 3 cut(s) | 198, 678, 853 |
| Kpn2I | TCCGGA | 1 cut(s) | 903 |
| Ksp22I | TGATCA | 1 cut(s) | 1213 |
| Kzo9I | GATC | 8 cut(s) | 172, 326, 641, 900, 1213, 1363, 1456, 1602 |
| LmnI | GCTCC | 2 cut(s) | 152, 439 |
| LweI | GCATC | 1 cut(s) | 1292 |
| MaeI | CTAG | 5 cut(s) | 39, 123, 165, 1104, 1287 |
| MaeII | ACGT | 1 cut(s) | 346 |
| MaeIII | GTNAC | 5 cut(s) | 278, 538, 941, 1328, 1349 |
| MalI | GATC | 8 cut(s) | 174, 328, 643, 902, 1215, 1365, 1458, 1604 |
| MboI | GATC | 8 cut(s) | 172, 326, 641, 900, 1213, 1363, 1456, 1602 |
| MflI | RGATCY | 2 cut(s) | 326, 641 |
| MhlI | GDGCHC | 3 cut(s) | 157, 810, 1511 |
| MlyI | GAGTC | 4 cut(s) | 49, 539, 1389, 1523 |
| MmeI | TCCRAC | 2 cut(s) | 1027, 1193 |
| Mph1103I | ATGCAT | 1 cut(s) | 550 |
| MroI | TCCGGA | 1 cut(s) | 903 |
| MseI | TTAA | 3 cut(s) | 657, 1158, 1407 |
| MslI | CAYNNNNRTG | 4 cut(s) | 82, 756, 984, 1209 |
| MspI | CCGG | 2 cut(s) | 195, 904 |
| Mva1269I | GAATGC | 1 cut(s) | 971 |
| MwoI | GCNNNNNNNGC | 3 cut(s) | 128, 675, 1079 |
| NcoI | CCATGG | 1 cut(s) | 1511 |
| NdeII | GATC | 8 cut(s) | 172, 326, 641, 900, 1213, 1363, 1456, 1602 |
| NlaIV | GGNNCC | 3 cut(s) | 307, 328, 489 |
| NmeAIII | GCCGAG | 1 cut(s) | 1530 |
| NmuCI | GTSAC | 2 cut(s) | 538, 941 |
| NsiI | ATGCAT | 1 cut(s) | 550 |
| NspI | RCATGY | 1 cut(s) | 552 |
| OliI | CACNNNNGTG | 1 cut(s) | 984 |
| PaeI | GCATGC | 1 cut(s) | 552 |
| PaqCI | CACCTGC | 1 cut(s) | 1509 |
| PcsI | WCGNNNNNNNCGW | 2 cut(s) | 469, 534 |
| PctI | GAATGC | 1 cut(s) | 971 |
| PfeI | GAWTC | 1 cut(s) | 964 |
| PleI | GAGTC | 4 cut(s) | 49, 538, 1388, 1523 |
| PpsI | GAGTC | 4 cut(s) | 49, 538, 1388, 1523 |
| Ppu21I | YACGTR | 1 cut(s) | 347 |
| PshBI | ATTAAT | 1 cut(s) | 1158 |
| Psp124BI | GAGCTC | 1 cut(s) | 157 |
| PspEI | GGTNACC | 1 cut(s) | 1349 |
| PspFI | CCCAGC | 1 cut(s) | 1624 |
| PspN4I | GGNNCC | 3 cut(s) | 307, 328, 489 |
| PspPI | GGNCC | 5 cut(s) | 488, 1081, 1274, 1495, 1535 |
| PsuI | RGATCY | 2 cut(s) | 326, 641 |
| RsaI | GTAC | 3 cut(s) | 169, 824, 1087 |
| RsaNI | GTAC | 3 cut(s) | 168, 823, 1086 |
| RseI | CAYNNNNRTG | 4 cut(s) | 82, 756, 984, 1209 |
| SacI | GAGCTC | 1 cut(s) | 157 |
| SaqAI | TTAA | 3 cut(s) | 657, 1158, 1407 |
| Sau3AI | GATC | 8 cut(s) | 172, 326, 641, 900, 1213, 1363, 1456, 1602 |
| Sau96I | GGNCC | 5 cut(s) | 488, 1081, 1274, 1495, 1535 |
| ScaI | AGTACT | 1 cut(s) | 169 |
| SchI | GAGTC | 4 cut(s) | 49, 539, 1389, 1523 |
| SduI | GDGCHC | 3 cut(s) | 157, 810, 1511 |
| SfaNI | GCATC | 1 cut(s) | 1292 |
| SfcI | CTRYAG | 1 cut(s) | 1461 |
| SgrAI | CRCCGGYG | 1 cut(s) | 194 |
| SinI | GGWCC | 2 cut(s) | 488, 1274 |
| SmiMI | CAYNNNNRTG | 4 cut(s) | 82, 756, 984, 1209 |
| SmlI | CTYRAG | 2 cut(s) | 57, 1113 |
| SmoI | CTYRAG | 2 cut(s) | 57, 1113 |
| SnaBI | TACGTA | 1 cut(s) | 347 |
| SpeI | ACTAGT | 1 cut(s) | 38 |
| SphI | GCATGC | 1 cut(s) | 552 |
| SsiI | CCGC | 3 cut(s) | 129, 512, 1490 |
| SspI | AATATT | 2 cut(s) | 800, 910 |
| SspMI | CTAG | 5 cut(s) | 39, 123, 165, 1104, 1287 |
| SstI | GAGCTC | 1 cut(s) | 157 |
| StyI | CCWWGG | 3 cut(s) | 888, 993, 1511 |
| TaaI | ACNGT | 6 cut(s) | 14, 538, 559, 986, 1334, 1355 |
| TaiI | ACGT | 1 cut(s) | 349 |
| TaqI | TCGA | 4 cut(s) | 528, 829, 1311, 1378 |
| TatI | WGTACW | 1 cut(s) | 167 |
| TfiI | GAWTC | 1 cut(s) | 964 |
| Tru1I | TTAA | 3 cut(s) | 657, 1158, 1407 |
| Tru9I | TTAA | 3 cut(s) | 657, 1158, 1407 |
| TscAI | CASTG | 1 cut(s) | 793 |
| TseFI | GTSAC | 2 cut(s) | 538, 941 |
| Tsp45I | GTSAC | 2 cut(s) | 538, 941 |
| TspDTI | ATGAA | 6 cut(s) | 347, 740, 879, 905, 1229, 1312 |
| TspGWI | ACGGA | 2 cut(s) | 963, 1069 |
| TspRI | CASTG | 1 cut(s) | 793 |
| VpaK11BI | GGWCC | 2 cut(s) | 488, 1274 |
| VspI | ATTAAT | 1 cut(s) | 1158 |
| XapI | RAATTY | 2 cut(s) | 1450, 1466 |
| XceI | RCATGY | 1 cut(s) | 552 |
| XcmI | CCANNNNNNNNNTGG | 2 cut(s) | 81, 89 |
| XspI | CTAG | 5 cut(s) | 39, 123, 165, 1104, 1287 |
| ZrmI | AGTACT | 1 cut(s) | 169 |
| Zsp2I | ATGCAT | 1 cut(s) | 550 |