transposition, RNA-mediated
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Retrotrans_gag | PF03732 | 329 - 403 | 9.2e-08 | Retrotransposon gag protein |
| Ty3_capsid | PF19259 | 337 - 438 | 3.7e-06 | Ty3 transposon capsid-like protein |
| RVT_1 | PF00078 | 787 - 849 | 1.5e-07 | Reverse transcriptase (RNA-dependent DNA polymerase) |
| RT_RNaseH_2 | PF17919 | 959 - 1053 | 2.5e-31 | RNase H-like domain found in reverse transcriptase |
| RT_RNaseH | PF17917 | 984 - 1083 | 2.8e-31 | RNase H-like domain found in reverse transcriptase |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AasI | GACNNNNNNGTC | 1 cut(s) | 98 |
| Acc36I | ACCTGC | 1 cut(s) | 2783 |
| Acc65I | GGTACC | 1 cut(s) | 1594 |
| AccB1I | GGYRCC | 5 cut(s) | 76, 1153, 1594, 3024, 3278 |
| AccB7I | CCANNNNNTGG | 2 cut(s) | 752, 1871 |
| AccII | CGCG | 1 cut(s) | 3242 |
| AciI | CCGC | 5 cut(s) | 381, 545, 1079, 2516, 3242 |
| AcoI | YGGCCR | 3 cut(s) | 186, 1773, 2551 |
| AcsI | RAATTY | 9 cut(s) | 149, 811, 905, 961, 1001, 1046, 1647, 1838, 2818 |
| AcuI | CTGAAG | 4 cut(s) | 942, 1992, 2521, 2970 |
| AcyI | GRCGYC | 2 cut(s) | 77, 3279 |
| AfaI | GTAC | 8 cut(s) | 899, 1012, 1108, 1121, 1596, 1668, 1809, 3185 |
| AfiI | CCNNNNNNNGG | 4 cut(s) | 752, 1020, 1871, 2425 |
| AflII | CTTAAG | 3 cut(s) | 1820, 1904, 2627 |
| AflIII | ACRYGT | 3 cut(s) | 64, 2578, 2683 |
| AhdI | GACNNNNNGTC | 1 cut(s) | 2482 |
| AjiI | CACGTC | 1 cut(s) | 67 |
| AjnI | CCWGG | 3 cut(s) | 1013, 1156, 2192 |
| Alw21I | GWGCWC | 3 cut(s) | 41, 264, 288 |
| Alw26I | GTCTC | 4 cut(s) | 495, 712, 1911, 1985 |
| AlwNI | CAGNNNCTG | 2 cut(s) | 1109, 2305 |
| Ama87I | CYCGRG | 1 cut(s) | 107 |
| ApeKI | GCWGC | 7 cut(s) | 118, 1053, 1968, 2019, 2390, 2894, 3068 |
| ApoI | RAATTY | 9 cut(s) | 149, 811, 905, 961, 1001, 1046, 1647, 1838, 2818 |
| AseI | ATTAAT | 1 cut(s) | 1523 |
| Asp718I | GGTACC | 1 cut(s) | 1594 |
| AspLEI | GCGC | 3 cut(s) | 79, 127, 3281 |
| AspS9I | GGNCC | 2 cut(s) | 1516, 2917 |
| AsuHPI | GGTGA | 8 cut(s) | 388, 485, 621, 692, 2109, 2137, 2343, 2486 |
| AvaI | CYCGRG | 1 cut(s) | 107 |
| AxyI | CCTNAGG | 2 cut(s) | 1170, 1294 |
| BaeGI | GKGCMC | 1 cut(s) | 3027 |
| BalI | TGGCCA | 3 cut(s) | 188, 1775, 2553 |
| BamHI | GGATCC | 2 cut(s) | 416, 2713 |
| BanI | GGYRCC | 5 cut(s) | 76, 1153, 1594, 3024, 3278 |
| BanII | GRGCYC | 2 cut(s) | 288, 2342 |
| BbsI | GAAGAC | 3 cut(s) | 1383, 1583, 2282 |
| Bbv12I | GWGCWC | 3 cut(s) | 41, 264, 288 |
| BbvI | GCAGC | 7 cut(s) | 105, 1065, 1955, 2006, 2402, 2906, 3055 |
| BccI | CCATC | 8 cut(s) | 34, 214, 257, 317, 379, 504, 975, 2468 |
| BceAI | ACGGC | 1 cut(s) | 3271 |
| BcgI | CGANNNNNNTGC | 4 cut(s) | 110, 144, 2963, 2997 |
| BciT130I | CCWGG | 3 cut(s) | 1015, 1158, 2194 |
| BciVI | GTATCC | 2 cut(s) | 2124, 3239 |
| BclI | TGATCA | 1 cut(s) | 3166 |
| BcoDI | GTCTC | 4 cut(s) | 495, 712, 1911, 1985 |
| BfaI | CTAG | 9 cut(s) | 405, 456, 531, 1089, 1455, 1797, 2034, 2438, 2835 |
| BfmI | CTRYAG | 5 cut(s) | 1504, 2664, 2800, 2829, 3102 |
| BfoI | RGCGCY | 2 cut(s) | 80, 3282 |
| BfrI | CTTAAG | 3 cut(s) | 1820, 1904, 2627 |
| BfuAI | ACCTGC | 1 cut(s) | 2783 |
| BfuI | GTATCC | 2 cut(s) | 2124, 3239 |
| BglII | AGATCT | 2 cut(s) | 407, 3201 |
| BisI | GCNGC | 8 cut(s) | 119, 1054, 1080, 1969, 2020, 2391, 2895, 3069 |
| BlpI | GCTNAGC | 1 cut(s) | 1338 |
| BlsI | GCNGC | 8 cut(s) | 120, 1055, 1081, 1970, 2021, 2392, 2896, 3070 |
| BmcAI | AGTACT | 2 cut(s) | 899, 3185 |
| Bme1390I | CCNGG | 3 cut(s) | 1015, 1158, 2194 |
| BmeRI | GACNNNNNGTC | 1 cut(s) | 2482 |
| BmeT110I | CYCGRG | 1 cut(s) | 107 |
| BmgBI | CACGTC | 1 cut(s) | 67 |
| BmgT120I | GGNCC | 2 cut(s) | 1516, 2917 |
| BmiI | GGNNCC | 8 cut(s) | 78, 418, 1155, 1596, 1729, 2715, 3026, 3280 |
| BmrFI | CCNGG | 3 cut(s) | 1015, 1158, 2194 |
| BmrI | ACTGGG | 1 cut(s) | 2927 |
| BmsI | GCATC | 9 cut(s) | 136, 145, 150, 543, 635, 733, 1325, 1420, 2971 |
| BmuI | ACTGGG | 1 cut(s) | 2927 |
| BpiI | GAAGAC | 3 cut(s) | 1383, 1583, 2282 |
| BplI | GAGNNNNNCTC | 4 cut(s) | 1407, 1439, 2994, 3026 |
| BpmI | CTGGAG | 2 cut(s) | 381, 2172 |
| Bpu10I | CCTNAGC | 1 cut(s) | 2697 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 1338 |
| BpuEI | CTTGAG | 2 cut(s) | 2027, 2500 |
| BsaBI | GATNNNNATC | 2 cut(s) | 340, 2409 |
| BsaHI | GRCGYC | 2 cut(s) | 77, 3279 |
| BsaJI | CCNNGG | 9 cut(s) | 183, 1083, 1364, 1493, 1731, 2126, 2449, 2568, 3274 |
| BsaXI | ACNNNNNCTCC | 6 cut(s) | 855, 885, 1908, 1938, 2694, 2724 |
| Bsc4I | CCNNNNNNNGG | 4 cut(s) | 752, 1020, 1871, 2425 |
| Bse1I | ACTGG | 8 cut(s) | 398, 1747, 1776, 1865, 2354, 2793, 2933, 3113 |
| Bse21I | CCTNAGG | 2 cut(s) | 1170, 1294 |
| Bse3DI | GCAATG | 3 cut(s) | 1483, 2034, 3030 |
| Bse8I | GATNNNNATC | 2 cut(s) | 340, 2409 |
| BseBI | CCWGG | 3 cut(s) | 1015, 1158, 2194 |
| BseDI | CCNNGG | 9 cut(s) | 183, 1083, 1364, 1493, 1731, 2126, 2449, 2568, 3274 |
| BseJI | GATNNNNATC | 2 cut(s) | 340, 2409 |
| BseLI | CCNNNNNNNGG | 4 cut(s) | 752, 1020, 1871, 2425 |
| BseMI | GCAATG | 3 cut(s) | 1483, 2034, 3030 |
| BseNI | ACTGG | 8 cut(s) | 398, 1747, 1776, 1865, 2354, 2793, 2933, 3113 |
| BseRI | GAGGAG | 4 cut(s) | 43, 876, 1815, 2338 |
| BseSI | GKGCMC | 1 cut(s) | 3027 |
| BseXI | GCAGC | 7 cut(s) | 105, 1065, 1955, 2006, 2402, 2906, 3055 |
| BsgI | GTGCAG | 2 cut(s) | 1954, 2318 |
| Bsh1236I | CGCG | 1 cut(s) | 3242 |
| BshNI | GGYRCC | 5 cut(s) | 76, 1153, 1594, 3024, 3278 |
| BsiHKAI | GWGCWC | 3 cut(s) | 41, 264, 288 |
| BsiHKCI | CYCGRG | 1 cut(s) | 107 |
| BsiSI | CCGG | 2 cut(s) | 281, 320 |
| BslFI | GGGAC | 3 cut(s) | 2694, 2799, 2839 |
| BslI | CCNNNNNNNGG | 4 cut(s) | 752, 1020, 1871, 2425 |
| BsmAI | GTCTC | 4 cut(s) | 495, 712, 1911, 1985 |
| BsmFI | GGGAC | 3 cut(s) | 2694, 2799, 2839 |
| BsmI | GAATGC | 1 cut(s) | 1251 |
| BsoBI | CYCGRG | 1 cut(s) | 107 |
| Bsp1286I | GDGCHC | 5 cut(s) | 41, 264, 288, 2342, 3027 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 1338 |
| Bsp19I | CCATGG | 2 cut(s) | 183, 2449 |
| BspACI | CCGC | 5 cut(s) | 381, 545, 1079, 2516, 3242 |
| BspFNI | CGCG | 1 cut(s) | 3242 |
| BspHI | TCATGA | 1 cut(s) | 2922 |
| BspLI | GGNNCC | 8 cut(s) | 78, 418, 1155, 1596, 1729, 2715, 3026, 3280 |
| BspMAI | CTGCAG | 1 cut(s) | 1508 |
| BspMI | ACCTGC | 1 cut(s) | 2783 |
| BspQI | GCTCTTC | 2 cut(s) | 1444, 2461 |
| BspT107I | GGYRCC | 5 cut(s) | 76, 1153, 1594, 3024, 3278 |
| BspTI | CTTAAG | 3 cut(s) | 1820, 1904, 2627 |
| BsrDI | GCAATG | 3 cut(s) | 1483, 2034, 3030 |
| BsrI | ACTGG | 8 cut(s) | 398, 1747, 1776, 1865, 2354, 2793, 2933, 3113 |
| BssECI | CCNNGG | 9 cut(s) | 183, 1083, 1364, 1493, 1731, 2126, 2449, 2568, 3274 |
| BssNI | GRCGYC | 2 cut(s) | 77, 3279 |
| BssT1I | CCWWGG | 6 cut(s) | 183, 1083, 1364, 1731, 2449, 2568 |
| Bst2UI | CCWGG | 3 cut(s) | 1015, 1158, 2194 |
| Bst4CI | ACNGT | 7 cut(s) | 331, 1111, 1131, 1494, 1638, 1960, 2668 |
| Bst6I | CTCTTC | 4 cut(s) | 1203, 1444, 1560, 2461 |
| BstACI | GRCGYC | 2 cut(s) | 77, 3279 |
| BstAFI | CTTAAG | 3 cut(s) | 1820, 1904, 2627 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 2305 |
| BstC8I | GCNNGC | 7 cut(s) | 123, 165, 169, 1230, 1269, 2916, 3240 |
| BstDSI | CCRYGG | 5 cut(s) | 183, 1493, 2126, 2449, 3274 |
| BstEII | GGTNACC | 1 cut(s) | 376 |
| BstFNI | CGCG | 1 cut(s) | 3242 |
| BstH2I | RGCGCY | 2 cut(s) | 80, 3282 |
| BstHHI | GCGC | 3 cut(s) | 79, 127, 3281 |
| BstMAI | GTCTC | 4 cut(s) | 495, 712, 1911, 1985 |
| BstNI | CCWGG | 3 cut(s) | 1015, 1158, 2194 |
| BstNSI | RCATGY | 4 cut(s) | 1263, 2582, 2687, 3068 |
| BstPI | GGTNACC | 1 cut(s) | 376 |
| BstSCI | CCNGG | 3 cut(s) | 1013, 1156, 2192 |
| BstSFI | CTRYAG | 5 cut(s) | 1504, 2664, 2800, 2829, 3102 |
| BstSLI | GKGCMC | 1 cut(s) | 3027 |
| BstUI | CGCG | 1 cut(s) | 3242 |
| BstV1I | GCAGC | 7 cut(s) | 105, 1065, 1955, 2006, 2402, 2906, 3055 |
| BstV2I | GAAGAC | 3 cut(s) | 1383, 1583, 2282 |
| BstX2I | RGATCY | 6 cut(s) | 341, 407, 416, 865, 2713, 3201 |
| BstXI | CCANNNNNNTGG | 2 cut(s) | 220, 1014 |
| BstYI | RGATCY | 6 cut(s) | 341, 407, 416, 865, 2713, 3201 |
| Bsu36I | CCTNAGG | 2 cut(s) | 1170, 1294 |
| BsuI | GTATCC | 2 cut(s) | 2124, 3239 |
| BtgI | CCRYGG | 5 cut(s) | 183, 1493, 2126, 2449, 3274 |
| BtgZI | GCGATG | 1 cut(s) | 173 |
| BtrI | CACGTC | 1 cut(s) | 67 |
| BtsI | GCAGTG | 2 cut(s) | 2691, 2715 |
| BveI | ACCTGC | 1 cut(s) | 2783 |
| Cac8I | GCNNGC | 7 cut(s) | 123, 165, 169, 1230, 1269, 2916, 3240 |
| CaiI | CAGNNNCTG | 2 cut(s) | 1109, 2305 |
| CciI | TCATGA | 1 cut(s) | 2922 |
| CfoI | GCGC | 3 cut(s) | 79, 127, 3281 |
| Cfr13I | GGNCC | 2 cut(s) | 1516, 2917 |
| CsiI | ACCWGGT | 1 cut(s) | 1156 |
| Csp6I | GTAC | 8 cut(s) | 898, 1011, 1107, 1120, 1595, 1667, 1808, 3184 |
| CviQI | GTAC | 8 cut(s) | 898, 1011, 1107, 1120, 1595, 1667, 1808, 3184 |
| DinI | GGCGCC | 2 cut(s) | 78, 3280 |
| DraI | TTTAAA | 2 cut(s) | 1203, 1761 |
| DrdI | GACNNNNNNGTC | 1 cut(s) | 98 |
| DriI | GACNNNNNGTC | 1 cut(s) | 2482 |
| DseDI | GACNNNNNNGTC | 1 cut(s) | 98 |
| EaeI | YGGCCR | 3 cut(s) | 186, 1773, 2551 |
| Eam1104I | CTCTTC | 4 cut(s) | 1203, 1444, 1560, 2461 |
| Eam1105I | GACNNNNNGTC | 1 cut(s) | 2482 |
| EarI | CTCTTC | 4 cut(s) | 1203, 1444, 1560, 2461 |
| Ecl136II | GAGCTC | 1 cut(s) | 286 |
| Eco130I | CCWWGG | 6 cut(s) | 183, 1083, 1364, 1731, 2449, 2568 |
| Eco147I | AGGCCT | 1 cut(s) | 3130 |
| Eco24I | GRGCYC | 2 cut(s) | 288, 2342 |
| Eco32I | GATATC | 1 cut(s) | 936 |
| Eco53kI | GAGCTC | 1 cut(s) | 286 |
| Eco57I | CTGAAG | 4 cut(s) | 942, 1992, 2521, 2970 |
| Eco81I | CCTNAGG | 2 cut(s) | 1170, 1294 |
| Eco88I | CYCGRG | 1 cut(s) | 107 |
| Eco91I | GGTNACC | 1 cut(s) | 376 |
| EcoICRI | GAGCTC | 1 cut(s) | 286 |
| EcoO109I | RGGNCCY | 1 cut(s) | 2917 |
| EcoO65I | GGTNACC | 1 cut(s) | 376 |
| EcoRI | GAATTC | 3 cut(s) | 961, 1046, 1838 |
| EcoRII | CCWGG | 3 cut(s) | 1013, 1156, 2192 |
| EcoRV | GATATC | 1 cut(s) | 936 |
| EcoT14I | CCWWGG | 6 cut(s) | 183, 1083, 1364, 1731, 2449, 2568 |
| EcoT38I | GRGCYC | 2 cut(s) | 288, 2342 |
| EgeI | GGCGCC | 2 cut(s) | 78, 3280 |
| EheI | GGCGCC | 2 cut(s) | 78, 3280 |
| ErhI | CCWWGG | 6 cut(s) | 183, 1083, 1364, 1731, 2449, 2568 |
| FalI | AAGNNNNNCTT | 2 cut(s) | 3034, 3066 |
| FaqI | GGGAC | 3 cut(s) | 2694, 2799, 2839 |
| FauI | CCCGC | 2 cut(s) | 538, 3235 |
| FbaI | TGATCA | 1 cut(s) | 3166 |
| Fnu4HI | GCNGC | 8 cut(s) | 119, 1054, 1080, 1969, 2020, 2391, 2895, 3069 |
| FriOI | GRGCYC | 2 cut(s) | 288, 2342 |
| Fsp4HI | GCNGC | 8 cut(s) | 119, 1054, 1080, 1969, 2020, 2391, 2895, 3069 |
| FspBI | CTAG | 9 cut(s) | 405, 456, 531, 1089, 1455, 1797, 2034, 2438, 2835 |
| GlaI | GCGC | 3 cut(s) | 78, 126, 3280 |
| GluI | GCNGC | 8 cut(s) | 119, 1054, 1080, 1969, 2020, 2391, 2895, 3069 |
| GsuI | CTGGAG | 2 cut(s) | 381, 2172 |
| HaeII | RGCGCY | 2 cut(s) | 80, 3282 |
| HapII | CCGG | 2 cut(s) | 281, 320 |
| HhaI | GCGC | 3 cut(s) | 79, 127, 3281 |
| Hin1I | GRCGYC | 2 cut(s) | 77, 3279 |
| Hin6I | GCGC | 3 cut(s) | 77, 125, 3279 |
| HinP1I | GCGC | 3 cut(s) | 77, 125, 3279 |
| HincII | GTYRAC | 1 cut(s) | 198 |
| HindII | GTYRAC | 1 cut(s) | 198 |
| HpaII | CCGG | 2 cut(s) | 281, 320 |
| HphI | GGTGA | 8 cut(s) | 388, 485, 621, 692, 2109, 2137, 2343, 2486 |
| Hpy166II | GTNNAC | 6 cut(s) | 103, 198, 792, 1134, 1669, 1956 |
| Hpy188III | TCNNGA | 8 cut(s) | 89, 131, 1146, 1296, 2044, 2923, 2988, 3017 |
| Hpy8I | GTNNAC | 6 cut(s) | 103, 198, 792, 1134, 1669, 1956 |
| Hpy99I | CGWCG | 2 cut(s) | 71, 95 |
| HpyAV | CCTTC | 7 cut(s) | 285, 621, 1109, 1636, 2353, 2545, 3014 |
| HpyCH4III | ACNGT | 7 cut(s) | 331, 1111, 1131, 1494, 1638, 1960, 2668 |
| HpyCH4IV | ACGT | 2 cut(s) | 66, 84 |
| HpySE526I | ACGT | 2 cut(s) | 66, 84 |
| Hsp92I | GRCGYC | 2 cut(s) | 77, 3279 |
| HspAI | GCGC | 3 cut(s) | 77, 125, 3279 |
| KasI | GGCGCC | 2 cut(s) | 76, 3278 |
| KpnI | GGTACC | 1 cut(s) | 1598 |
| Ksp22I | TGATCA | 1 cut(s) | 3166 |
| LguI | GCTCTTC | 2 cut(s) | 1444, 2461 |
| LmnI | GCTCC | 6 cut(s) | 36, 259, 283, 1781, 1892, 3002 |
| Lsp1109I | GCAGC | 7 cut(s) | 105, 1065, 1955, 2006, 2402, 2906, 3055 |
| LweI | GCATC | 9 cut(s) | 136, 145, 150, 543, 635, 733, 1325, 1420, 2971 |
| MabI | ACCWGGT | 1 cut(s) | 1156 |
| MaeI | CTAG | 9 cut(s) | 405, 456, 531, 1089, 1455, 1797, 2034, 2438, 2835 |
| MaeII | ACGT | 2 cut(s) | 66, 84 |
| MaeIII | GTNAC | 4 cut(s) | 376, 458, 470, 2795 |
| MfeI | CAATTG | 4 cut(s) | 621, 939, 1602, 1832 |
| MflI | RGATCY | 6 cut(s) | 341, 407, 416, 865, 2713, 3201 |
| MhlI | GDGCHC | 5 cut(s) | 41, 264, 288, 2342, 3027 |
| MlsI | TGGCCA | 3 cut(s) | 188, 1775, 2553 |
| MluNI | TGGCCA | 3 cut(s) | 188, 1775, 2553 |
| Mly113I | GGCGCC | 2 cut(s) | 77, 3279 |
| MlyI | GAGTC | 2 cut(s) | 1577, 2518 |
| MmeI | TCCRAC | 4 cut(s) | 614, 1852, 2198, 3236 |
| Mox20I | TGGCCA | 3 cut(s) | 188, 1775, 2553 |
| MscI | TGGCCA | 3 cut(s) | 188, 1775, 2553 |
| MslI | CAYNNNNRTG | 3 cut(s) | 218, 1946, 2849 |
| Msp20I | TGGCCA | 3 cut(s) | 188, 1775, 2553 |
| MspCI | CTTAAG | 3 cut(s) | 1820, 1904, 2627 |
| MspI | CCGG | 2 cut(s) | 281, 320 |
| MspR9I | CCNGG | 3 cut(s) | 1015, 1158, 2194 |
| MunI | CAATTG | 4 cut(s) | 621, 939, 1602, 1832 |
| Mva1269I | GAATGC | 1 cut(s) | 1251 |
| MvaI | CCWGG | 3 cut(s) | 1015, 1158, 2194 |
| MvnI | CGCG | 1 cut(s) | 3242 |
| NarI | GGCGCC | 2 cut(s) | 77, 3279 |
| NcoI | CCATGG | 2 cut(s) | 183, 2449 |
| NlaIV | GGNNCC | 8 cut(s) | 78, 418, 1155, 1596, 1729, 2715, 3026, 3280 |
| NmuCI | GTSAC | 2 cut(s) | 376, 458 |
| NspI | RCATGY | 4 cut(s) | 1263, 2582, 2687, 3068 |
| PaeR7I | CTCGAG | 1 cut(s) | 107 |
| PagI | TCATGA | 1 cut(s) | 2922 |
| PceI | AGGCCT | 1 cut(s) | 3130 |
| PciI | ACATGT | 2 cut(s) | 2578, 2683 |
| PciSI | GCTCTTC | 2 cut(s) | 1444, 2461 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 90 |
| PctI | GAATGC | 1 cut(s) | 1251 |
| PflMI | CCANNNNNTGG | 2 cut(s) | 752, 1871 |
| PkrI | GCNGC | 8 cut(s) | 120, 1055, 1081, 1970, 2021, 2392, 2896, 3070 |
| PleI | GAGTC | 2 cut(s) | 1576, 2517 |
| PluTI | GGCGCC | 2 cut(s) | 80, 3282 |
| PpsI | GAGTC | 2 cut(s) | 1576, 2517 |
| PscI | ACATGT | 2 cut(s) | 2578, 2683 |
| PshBI | ATTAAT | 1 cut(s) | 1523 |
| Psp124BI | GAGCTC | 1 cut(s) | 288 |
| Psp6I | CCWGG | 3 cut(s) | 1013, 1156, 2192 |
| PspEI | GGTNACC | 1 cut(s) | 376 |
| PspGI | CCWGG | 3 cut(s) | 1013, 1156, 2192 |
| PspN4I | GGNNCC | 8 cut(s) | 78, 418, 1155, 1596, 1729, 2715, 3026, 3280 |
| PspPI | GGNCC | 2 cut(s) | 1516, 2917 |
| PspXI | VCTCGAGB | 1 cut(s) | 107 |
| PstI | CTGCAG | 1 cut(s) | 1508 |
| PstNI | CAGNNNCTG | 2 cut(s) | 1109, 2305 |
| PsuI | RGATCY | 6 cut(s) | 341, 407, 416, 865, 2713, 3201 |
| RsaI | GTAC | 8 cut(s) | 899, 1012, 1108, 1121, 1596, 1668, 1809, 3185 |
| RsaNI | GTAC | 8 cut(s) | 898, 1011, 1107, 1120, 1595, 1667, 1808, 3184 |
| RseI | CAYNNNNRTG | 3 cut(s) | 218, 1946, 2849 |
| SacI | GAGCTC | 1 cut(s) | 288 |
| SapI | GCTCTTC | 2 cut(s) | 1444, 2461 |
| SatI | GCNGC | 8 cut(s) | 119, 1054, 1080, 1969, 2020, 2391, 2895, 3069 |
| Sau96I | GGNCC | 2 cut(s) | 1516, 2917 |
| ScaI | AGTACT | 2 cut(s) | 899, 3185 |
| SchI | GAGTC | 2 cut(s) | 1577, 2518 |
| ScrFI | CCNGG | 3 cut(s) | 1015, 1158, 2194 |
| SduI | GDGCHC | 5 cut(s) | 41, 264, 288, 2342, 3027 |
| SexAI | ACCWGGT | 1 cut(s) | 1156 |
| SfaNI | GCATC | 9 cut(s) | 136, 145, 150, 543, 635, 733, 1325, 1420, 2971 |
| SfcI | CTRYAG | 5 cut(s) | 1504, 2664, 2800, 2829, 3102 |
| SfoI | GGCGCC | 2 cut(s) | 78, 3280 |
| Sfr274I | CTCGAG | 1 cut(s) | 107 |
| SlaI | CTCGAG | 1 cut(s) | 107 |
| SmiMI | CAYNNNNRTG | 3 cut(s) | 218, 1946, 2849 |
| SmlI | CTYRAG | 6 cut(s) | 107, 1820, 1904, 2042, 2479, 2627 |
| SmoI | CTYRAG | 6 cut(s) | 107, 1820, 1904, 2042, 2479, 2627 |
| SseBI | AGGCCT | 1 cut(s) | 3130 |
| SsiI | CCGC | 5 cut(s) | 381, 545, 1079, 2516, 3242 |
| SspDI | GGCGCC | 2 cut(s) | 76, 3278 |
| SspMI | CTAG | 9 cut(s) | 405, 456, 531, 1089, 1455, 1797, 2034, 2438, 2835 |
| SstI | GAGCTC | 1 cut(s) | 288 |
| StuI | AGGCCT | 1 cut(s) | 3130 |
| StyD4I | CCNGG | 3 cut(s) | 1013, 1156, 2192 |
| StyI | CCWWGG | 6 cut(s) | 183, 1083, 1364, 1731, 2449, 2568 |
| TaaI | ACNGT | 7 cut(s) | 331, 1111, 1131, 1494, 1638, 1960, 2668 |
| TaiI | ACGT | 2 cut(s) | 69, 87 |
| TaqI | TCGA | 5 cut(s) | 108, 153, 1243, 2749, 2973 |
| TatI | WGTACW | 3 cut(s) | 897, 1666, 3183 |
| TauI | GCSGC | 1 cut(s) | 1082 |
| TseFI | GTSAC | 2 cut(s) | 376, 458 |
| TseI | GCWGC | 7 cut(s) | 118, 1053, 1968, 2019, 2390, 2894, 3068 |
| Tsp45I | GTSAC | 2 cut(s) | 376, 458 |
| TspGWI | ACGGA | 1 cut(s) | 2143 |
| Van91I | CCANNNNNTGG | 2 cut(s) | 752, 1871 |
| Vha464I | CTTAAG | 3 cut(s) | 1820, 1904, 2627 |
| VspI | ATTAAT | 1 cut(s) | 1523 |
| XapI | RAATTY | 9 cut(s) | 149, 811, 905, 961, 1001, 1046, 1647, 1838, 2818 |
| XceI | RCATGY | 4 cut(s) | 1263, 2582, 2687, 3068 |
| XcmI | CCANNNNNNNNNTGG | 1 cut(s) | 3120 |
| XhoI | CTCGAG | 1 cut(s) | 107 |
| XspI | CTAG | 9 cut(s) | 405, 456, 531, 1089, 1455, 1797, 2034, 2438, 2835 |
| ZrmI | AGTACT | 2 cut(s) | 899, 3185 |