gag-polypeptide of LTR copia-type
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Retrotran_gag_2 | PF14223 | 44 - 209 | 1.2e-20 | gag-polypeptide of LTR copia-type |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AasI | GACNNNNNNGTC | 1 cut(s) | 506 |
| AclWI | GGATC | 1 cut(s) | 893 |
| AcoI | YGGCCR | 2 cut(s) | 468, 1201 |
| AcsI | RAATTY | 5 cut(s) | 95, 323, 937, 1185, 1278 |
| AcuI | CTGAAG | 1 cut(s) | 639 |
| AcvI | CACGTG | 1 cut(s) | 201 |
| AdeI | CACNNNGTG | 1 cut(s) | 686 |
| AfaI | GTAC | 5 cut(s) | 434, 769, 788, 858, 1450 |
| AfiI | CCNNNNNNNGG | 2 cut(s) | 477, 783 |
| AflIII | ACRYGT | 1 cut(s) | 200 |
| AjnI | CCWGG | 1 cut(s) | 1480 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 86, 118 |
| AluBI | AGCT | 3 cut(s) | 1164, 1307, 1373 |
| AluI | AGCT | 3 cut(s) | 1164, 1307, 1373 |
| Alw21I | GWGCWC | 1 cut(s) | 1417 |
| Alw26I | GTCTC | 6 cut(s) | 295, 514, 606, 1007, 1392, 1430 |
| AlwI | GGATC | 1 cut(s) | 893 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 1465 |
| AoxI | GGCC | 3 cut(s) | 127, 468, 1201 |
| ApeKI | GCWGC | 4 cut(s) | 266, 842, 1161, 1304 |
| ApoI | RAATTY | 5 cut(s) | 95, 323, 937, 1185, 1278 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 985, 1017 |
| AspLEI | GCGC | 1 cut(s) | 1262 |
| AspS9I | GGNCC | 1 cut(s) | 797 |
| AsuHPI | GGTGA | 3 cut(s) | 457, 698, 974 |
| AvaII | GGWCC | 1 cut(s) | 797 |
| BalI | TGGCCA | 2 cut(s) | 470, 1203 |
| BbrPI | CACGTG | 1 cut(s) | 201 |
| BbsI | GAAGAC | 1 cut(s) | 504 |
| Bbv12I | GWGCWC | 1 cut(s) | 1417 |
| BbvI | GCAGC | 4 cut(s) | 253, 829, 1173, 1316 |
| BccI | CCATC | 5 cut(s) | 65, 140, 185, 445, 538 |
| BciT130I | CCWGG | 1 cut(s) | 1482 |
| BclI | TGATCA | 2 cut(s) | 177, 460 |
| BcoDI | GTCTC | 6 cut(s) | 295, 514, 606, 1007, 1392, 1430 |
| BfaI | CTAG | 4 cut(s) | 279, 318, 1116, 1418 |
| BfmI | CTRYAG | 1 cut(s) | 1368 |
| BfoI | RGCGCY | 1 cut(s) | 1263 |
| BglII | AGATCT | 1 cut(s) | 1229 |
| BisI | GCNGC | 4 cut(s) | 267, 843, 1162, 1305 |
| BlpI | GCTNAGC | 1 cut(s) | 567 |
| BlsI | GCNGC | 4 cut(s) | 268, 844, 1163, 1306 |
| BmcAI | AGTACT | 2 cut(s) | 434, 769 |
| Bme1390I | CCNGG | 1 cut(s) | 1482 |
| Bme18I | GGWCC | 1 cut(s) | 797 |
| BmgT120I | GGNCC | 1 cut(s) | 797 |
| BmrFI | CCNGG | 1 cut(s) | 1482 |
| BmsI | GCATC | 5 cut(s) | 721, 747, 821, 1121, 1333 |
| BpiI | GAAGAC | 1 cut(s) | 504 |
| BpmI | CTGGAG | 1 cut(s) | 1141 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 567 |
| BpuEI | CTTGAG | 3 cut(s) | 40, 323, 1051 |
| BsaAI | YACGTR | 1 cut(s) | 201 |
| BsaI | GGTCTC | 2 cut(s) | 606, 1007 |
| BsaJI | CCNNGG | 1 cut(s) | 1057 |
| Bsc4I | CCNNNNNNNGG | 2 cut(s) | 477, 783 |
| Bse1I | ACTGG | 1 cut(s) | 1414 |
| Bse3DI | GCAATG | 2 cut(s) | 612, 807 |
| BseBI | CCWGG | 1 cut(s) | 1482 |
| BseDI | CCNNGG | 1 cut(s) | 1057 |
| BseGI | GGATG | 1 cut(s) | 1390 |
| BseLI | CCNNNNNNNGG | 2 cut(s) | 477, 783 |
| BseMI | GCAATG | 2 cut(s) | 612, 807 |
| BseMII | CTCAG | 1 cut(s) | 1472 |
| BseNI | ACTGG | 1 cut(s) | 1414 |
| BseRI | GAGGAG | 1 cut(s) | 1227 |
| BseXI | GCAGC | 4 cut(s) | 253, 829, 1173, 1316 |
| BsgI | GTGCAG | 1 cut(s) | 1323 |
| BshFI | GGCC | 3 cut(s) | 129, 470, 1203 |
| BsiHKAI | GWGCWC | 1 cut(s) | 1417 |
| BslFI | GGGAC | 1 cut(s) | 715 |
| BslI | CCNNNNNNNGG | 2 cut(s) | 477, 783 |
| BsmAI | GTCTC | 6 cut(s) | 295, 514, 606, 1007, 1392, 1430 |
| BsmBI | CGTCTC | 1 cut(s) | 1392 |
| BsmFI | GGGAC | 1 cut(s) | 715 |
| BsmI | GAATGC | 2 cut(s) | 983, 1316 |
| BsnI | GGCC | 3 cut(s) | 129, 470, 1203 |
| Bso31I | GGTCTC | 2 cut(s) | 606, 1007 |
| Bsp1286I | GDGCHC | 1 cut(s) | 1417 |
| Bsp1407I | TGTACA | 1 cut(s) | 856 |
| Bsp143I | GATC | 4 cut(s) | 177, 460, 898, 1229 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 567 |
| BspANI | GGCC | 3 cut(s) | 129, 470, 1203 |
| BspCNI | CTCAG | 1 cut(s) | 1471 |
| BspPI | GGATC | 1 cut(s) | 893 |
| BspTNI | GGTCTC | 2 cut(s) | 606, 1007 |
| BsrDI | GCAATG | 2 cut(s) | 612, 807 |
| BsrGI | TGTACA | 1 cut(s) | 856 |
| BsrI | ACTGG | 1 cut(s) | 1414 |
| BssECI | CCNNGG | 1 cut(s) | 1057 |
| BssMI | GATC | 4 cut(s) | 177, 460, 898, 1229 |
| BssT1I | CCWWGG | 1 cut(s) | 1057 |
| Bst2UI | CCWGG | 1 cut(s) | 1482 |
| Bst4CI | ACNGT | 3 cut(s) | 772, 853, 1301 |
| Bst6I | CTCTTC | 1 cut(s) | 627 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 886 |
| BstAUI | TGTACA | 1 cut(s) | 856 |
| BstBAI | YACGTR | 1 cut(s) | 201 |
| BstC8I | GCNNGC | 1 cut(s) | 264 |
| BstDEI | CTNAG | 3 cut(s) | 67, 567, 1458 |
| BstENI | CCTNNNNNAGG | 1 cut(s) | 781 |
| BstF5I | GGATG | 1 cut(s) | 1390 |
| BstH2I | RGCGCY | 1 cut(s) | 1263 |
| BstHHI | GCGC | 1 cut(s) | 1262 |
| BstKTI | GATC | 4 cut(s) | 180, 463, 901, 1232 |
| BstMAI | GTCTC | 6 cut(s) | 295, 514, 606, 1007, 1392, 1430 |
| BstMBI | GATC | 4 cut(s) | 177, 460, 898, 1229 |
| BstMWI | GCNNNNNNNGC | 5 cut(s) | 72, 254, 263, 886, 1188 |
| BstNI | CCWGG | 1 cut(s) | 1482 |
| BstSCI | CCNGG | 1 cut(s) | 1480 |
| BstSFI | CTRYAG | 1 cut(s) | 1368 |
| BstV1I | GCAGC | 4 cut(s) | 253, 829, 1173, 1316 |
| BstV2I | GAAGAC | 1 cut(s) | 504 |
| BstX2I | RGATCY | 1 cut(s) | 1229 |
| BstXI | CCANNNNNNTGG | 1 cut(s) | 1199 |
| BstYI | RGATCY | 1 cut(s) | 1229 |
| BsuRI | GGCC | 3 cut(s) | 129, 470, 1203 |
| BtsCI | GGATG | 1 cut(s) | 1390 |
| BtsIMutI | CAGTG | 2 cut(s) | 1306, 1407 |
| Cac8I | GCNNGC | 1 cut(s) | 264 |
| CaiI | CAGNNNCTG | 1 cut(s) | 1465 |
| CfoI | GCGC | 1 cut(s) | 1262 |
| Cfr13I | GGNCC | 1 cut(s) | 797 |
| Csp6I | GTAC | 5 cut(s) | 433, 768, 787, 857, 1449 |
| CviQI | GTAC | 5 cut(s) | 433, 768, 787, 857, 1449 |
| DdeI | CTNAG | 3 cut(s) | 67, 567, 1458 |
| DpnI | GATC | 4 cut(s) | 179, 462, 900, 1231 |
| DpnII | GATC | 4 cut(s) | 177, 460, 898, 1229 |
| DraIII | CACNNNGTG | 1 cut(s) | 686 |
| DrdI | GACNNNNNNGTC | 1 cut(s) | 506 |
| DseDI | GACNNNNNNGTC | 1 cut(s) | 506 |
| EaeI | YGGCCR | 2 cut(s) | 468, 1201 |
| Eam1104I | CTCTTC | 1 cut(s) | 627 |
| EarI | CTCTTC | 1 cut(s) | 627 |
| Eco130I | CCWWGG | 1 cut(s) | 1057 |
| Eco31I | GGTCTC | 2 cut(s) | 606, 1007 |
| Eco47I | GGWCC | 1 cut(s) | 797 |
| Eco57I | CTGAAG | 1 cut(s) | 639 |
| Eco72I | CACGTG | 1 cut(s) | 201 |
| EcoNI | CCTNNNNNAGG | 1 cut(s) | 781 |
| EcoRII | CCWGG | 1 cut(s) | 1480 |
| EcoT14I | CCWWGG | 1 cut(s) | 1057 |
| ErhI | CCWWGG | 1 cut(s) | 1057 |
| Esp3I | CGTCTC | 1 cut(s) | 1392 |
| FalI | AAGNNNNNCTT | 8 cut(s) | 298, 330, 337, 369, 377, 409, 612, 644 |
| FaqI | GGGAC | 1 cut(s) | 715 |
| FauNDI | CATATG | 2 cut(s) | 486, 838 |
| FbaI | TGATCA | 2 cut(s) | 177, 460 |
| Fnu4HI | GCNGC | 4 cut(s) | 267, 843, 1162, 1305 |
| FokI | GGATG | 1 cut(s) | 1377 |
| Fsp4HI | GCNGC | 4 cut(s) | 267, 843, 1162, 1305 |
| FspBI | CTAG | 4 cut(s) | 279, 318, 1116, 1418 |
| GlaI | GCGC | 1 cut(s) | 1261 |
| GluI | GCNGC | 4 cut(s) | 267, 843, 1162, 1305 |
| GsuI | CTGGAG | 1 cut(s) | 1141 |
| HaeII | RGCGCY | 1 cut(s) | 1263 |
| HaeIII | GGCC | 3 cut(s) | 129, 470, 1203 |
| HhaI | GCGC | 1 cut(s) | 1262 |
| Hin6I | GCGC | 1 cut(s) | 1260 |
| HinP1I | GCGC | 1 cut(s) | 1260 |
| HincII | GTYRAC | 1 cut(s) | 640 |
| HindII | GTYRAC | 1 cut(s) | 640 |
| HinfI | GANTC | 2 cut(s) | 419, 481 |
| HphI | GGTGA | 3 cut(s) | 457, 698, 974 |
| Hpy166II | GTNNAC | 1 cut(s) | 640 |
| Hpy188I | TCNGA | 4 cut(s) | 54, 418, 535, 698 |
| Hpy188III | TCNNGA | 2 cut(s) | 318, 942 |
| Hpy8I | GTNNAC | 1 cut(s) | 640 |
| HpyAV | CCTTC | 3 cut(s) | 174, 669, 1037 |
| HpyCH4III | ACNGT | 3 cut(s) | 772, 853, 1301 |
| HpyCH4IV | ACGT | 1 cut(s) | 200 |
| HpyCH4V | TGCA | 9 cut(s) | 48, 589, 812, 845, 880, 1009, 1112, 1304, 1444 |
| HpyF10VI | GCNNNNNNNGC | 5 cut(s) | 72, 254, 263, 886, 1188 |
| HpyF3I | CTNAG | 3 cut(s) | 67, 567, 1458 |
| HpySE526I | ACGT | 1 cut(s) | 200 |
| HspAI | GCGC | 1 cut(s) | 1260 |
| Ksp22I | TGATCA | 2 cut(s) | 177, 460 |
| Kzo9I | GATC | 4 cut(s) | 177, 460, 898, 1229 |
| LmnI | GCTCC | 2 cut(s) | 1216, 1240 |
| LpnPI | CCDG | 7 cut(s) | 547, 927, 1171, 1242, 1278, 1395, 1467 |
| Lsp1109I | GCAGC | 4 cut(s) | 253, 829, 1173, 1316 |
| LweI | GCATC | 5 cut(s) | 721, 747, 821, 1121, 1333 |
| MaeI | CTAG | 4 cut(s) | 279, 318, 1116, 1418 |
| MaeII | ACGT | 1 cut(s) | 200 |
| MaeIII | GTNAC | 8 cut(s) | 85, 196, 724, 745, 1249, 1295, 1405, 1461 |
| MalI | GATC | 4 cut(s) | 179, 462, 900, 1231 |
| MboI | GATC | 4 cut(s) | 177, 460, 898, 1229 |
| MboII | GAAGA | 7 cut(s) | 197, 200, 460, 509, 509, 644, 1368 |
| MfeI | CAATTG | 1 cut(s) | 1401 |
| MflI | RGATCY | 1 cut(s) | 1229 |
| MhlI | GDGCHC | 1 cut(s) | 1417 |
| MlsI | TGGCCA | 2 cut(s) | 470, 1203 |
| MluCI | AATT | 8 cut(s) | 40, 95, 323, 691, 937, 1185, 1278, 1401 |
| MluNI | TGGCCA | 2 cut(s) | 470, 1203 |
| MmeI | TCCRAC | 3 cut(s) | 84, 283, 1363 |
| Mox20I | TGGCCA | 2 cut(s) | 470, 1203 |
| MscI | TGGCCA | 2 cut(s) | 470, 1203 |
| MseI | TTAA | 3 cut(s) | 116, 369, 596 |
| MslI | CAYNNNNRTG | 4 cut(s) | 584, 1117, 1270, 1329 |
| Msp20I | TGGCCA | 2 cut(s) | 470, 1203 |
| MspA1I | CMGCKG | 1 cut(s) | 1307 |
| MspR9I | CCNGG | 1 cut(s) | 1482 |
| MunI | CAATTG | 1 cut(s) | 1401 |
| Mva1269I | GAATGC | 2 cut(s) | 983, 1316 |
| MvaI | CCWGG | 1 cut(s) | 1482 |
| MwoI | GCNNNNNNNGC | 5 cut(s) | 72, 254, 263, 886, 1188 |
| NdeI | CATATG | 2 cut(s) | 486, 838 |
| NdeII | GATC | 4 cut(s) | 177, 460, 898, 1229 |
| NmuCI | GTSAC | 4 cut(s) | 85, 196, 1295, 1405 |
| PctI | GAATGC | 2 cut(s) | 983, 1316 |
| PfeI | GAWTC | 2 cut(s) | 419, 481 |
| PkrI | GCNGC | 4 cut(s) | 268, 844, 1163, 1306 |
| PmaCI | CACGTG | 1 cut(s) | 201 |
| PmlI | CACGTG | 1 cut(s) | 201 |
| Ppu21I | YACGTR | 1 cut(s) | 201 |
| Psp6I | CCWGG | 1 cut(s) | 1480 |
| PspCI | CACGTG | 1 cut(s) | 201 |
| PspGI | CCWGG | 1 cut(s) | 1480 |
| PspPI | GGNCC | 1 cut(s) | 797 |
| PstNI | CAGNNNCTG | 1 cut(s) | 1465 |
| PsuI | RGATCY | 1 cut(s) | 1229 |
| PvuII | CAGCTG | 1 cut(s) | 1307 |
| RsaI | GTAC | 5 cut(s) | 434, 769, 788, 858, 1450 |
| RsaNI | GTAC | 5 cut(s) | 433, 768, 787, 857, 1449 |
| RseI | CAYNNNNRTG | 4 cut(s) | 584, 1117, 1270, 1329 |
| SaqAI | TTAA | 3 cut(s) | 116, 369, 596 |
| SatI | GCNGC | 4 cut(s) | 267, 843, 1162, 1305 |
| Sau3AI | GATC | 4 cut(s) | 177, 460, 898, 1229 |
| Sau96I | GGNCC | 1 cut(s) | 797 |
| ScaI | AGTACT | 2 cut(s) | 434, 769 |
| ScrFI | CCNGG | 1 cut(s) | 1482 |
| SduI | GDGCHC | 1 cut(s) | 1417 |
| SfaNI | GCATC | 5 cut(s) | 721, 747, 821, 1121, 1333 |
| SfcI | CTRYAG | 1 cut(s) | 1368 |
| SinI | GGWCC | 1 cut(s) | 797 |
| SmiMI | CAYNNNNRTG | 4 cut(s) | 584, 1117, 1270, 1329 |
| SmlI | CTYRAG | 3 cut(s) | 19, 338, 1066 |
| SmoI | CTYRAG | 3 cut(s) | 19, 338, 1066 |
| Sse9I | AATT | 8 cut(s) | 40, 95, 323, 691, 937, 1185, 1278, 1401 |
| SspI | AATATT | 1 cut(s) | 958 |
| SspMI | CTAG | 4 cut(s) | 279, 318, 1116, 1418 |
| StyD4I | CCNGG | 1 cut(s) | 1480 |
| StyI | CCWWGG | 1 cut(s) | 1057 |
| TaaI | ACNGT | 3 cut(s) | 772, 853, 1301 |
| TaiI | ACGT | 1 cut(s) | 203 |
| TaqI | TCGA | 1 cut(s) | 1240 |
| TasI | AATT | 8 cut(s) | 40, 95, 323, 691, 937, 1185, 1278, 1401 |
| TatI | WGTACW | 3 cut(s) | 432, 767, 856 |
| TfiI | GAWTC | 2 cut(s) | 419, 481 |
| Tru1I | TTAA | 3 cut(s) | 116, 369, 596 |
| Tru9I | TTAA | 3 cut(s) | 116, 369, 596 |
| TscAI | CASTG | 2 cut(s) | 1306, 1414 |
| TseFI | GTSAC | 4 cut(s) | 85, 196, 1295, 1405 |
| TseI | GCWGC | 4 cut(s) | 266, 842, 1161, 1304 |
| Tsp45I | GTSAC | 4 cut(s) | 85, 196, 1295, 1405 |
| TspGWI | ACGGA | 2 cut(s) | 49, 1203 |
| TspRI | CASTG | 2 cut(s) | 1306, 1414 |
| VpaK11BI | GGWCC | 1 cut(s) | 797 |
| XagI | CCTNNNNNAGG | 1 cut(s) | 781 |
| XapI | RAATTY | 5 cut(s) | 95, 323, 937, 1185, 1278 |
| XbaI | TCTAGA | 1 cut(s) | 317 |
| XspI | CTAG | 4 cut(s) | 279, 318, 1116, 1418 |
| ZrmI | AGTACT | 2 cut(s) | 434, 769 |