transposition, RNA-mediated
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Ty3_capsid | PF19259 | 374 - 512 | 7.1e-08 | Ty3 transposon capsid-like protein |
| Retrotrans_gag | PF03732 | 387 - 474 | 6.7e-10 | Retrotransposon gag protein |
| RVP_2 | PF08284 | 662 - 742 | 1.7e-07 | Retroviral aspartyl protease |
| RVT_1 | PF00078 | 892 - 1052 | 2e-42 | Reverse transcriptase (RNA-dependent DNA polymerase) |
| RT_RNaseH_2 | PF17919 | 1114 - 1208 | 1e-31 | RNase H-like domain found in reverse transcriptase |
| RT_RNaseH | PF17917 | 1139 - 1238 | 2.5e-32 | RNase H-like domain found in reverse transcriptase |
| Integrase_H2C2 | PF17921 | 1328 - 1380 | 5.8e-19 | Integrase zinc binding domain |
| SH3_Tf2-1 | PF24626 | 1612 - 1675 | 1e-21 | Tf2-1-like, SH3 domain |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AarI | CACCTGC | 1 cut(s) | 3685 |
| AatII | GACGTC | 1 cut(s) | 2862 |
| Acc36I | ACCTGC | 4 cut(s) | 2071, 2151, 3685, 4455 |
| Acc65I | GGTACC | 2 cut(s) | 2568, 3124 |
| AccB1I | GGYRCC | 5 cut(s) | 2568, 3124, 3754, 4889, 5174 |
| AccB7I | CCANNNNNTGG | 4 cut(s) | 579, 1230, 1667, 5154 |
| AccBSI | CCGCTC | 1 cut(s) | 434 |
| AccI | GTMKAC | 2 cut(s) | 410, 1016 |
| AciI | CCGC | 9 cut(s) | 308, 311, 317, 432, 1258, 1658, 3345, 3368, 3752 |
| AclI | AACGTT | 1 cut(s) | 4823 |
| AcoI | YGGCCR | 6 cut(s) | 1232, 1771, 3209, 4495, 4676, 5049 |
| AcuI | CTGAAG | 5 cut(s) | 129, 1884, 2381, 3852, 4263 |
| AcvI | CACGTG | 1 cut(s) | 5008 |
| AcyI | GRCGYC | 1 cut(s) | 2859 |
| AdeI | CACNNNGTG | 2 cut(s) | 4999, 5154 |
| AflII | CTTAAG | 3 cut(s) | 341, 2818, 5018 |
| AflIII | ACRYGT | 3 cut(s) | 1987, 3315, 5007 |
| AgeI | ACCGGT | 2 cut(s) | 1319, 3811 |
| AjuI | GAANNNNNNNTTGG | 4 cut(s) | 152, 184, 1857, 1889 |
| AloI | GAACNNNNNNTCC | 2 cut(s) | 1184, 1216 |
| Alw21I | GWGCWC | 4 cut(s) | 156, 177, 285, 2202 |
| Alw26I | GTCTC | 5 cut(s) | 390, 1077, 2303, 2692, 3067 |
| ApaI | GGGCCC | 1 cut(s) | 1372 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 4808, 4840 |
| AseI | ATTAAT | 2 cut(s) | 672, 2550 |
| AsiGI | ACCGGT | 2 cut(s) | 1319, 3811 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 3914 |
| Asp718I | GGTACC | 2 cut(s) | 2568, 3124 |
| AspA2I | CCTAGG | 4 cut(s) | 1457, 1571, 3142, 4235 |
| AsuC2I | CCSGG | 3 cut(s) | 263, 450, 4081 |
| AsuNHI | GCTAGC | 1 cut(s) | 1153 |
| AvaII | GGWCC | 6 cut(s) | 1461, 3342, 3895, 4077, 4402, 4692 |
| AvrII | CCTAGG | 4 cut(s) | 1457, 1571, 3142, 4235 |
| AxyI | CCTNAGG | 1 cut(s) | 988 |
| BaeGI | GKGCMC | 1 cut(s) | 1372 |
| BaeI | ACNNNNGTAYC | 4 cut(s) | 3786, 3810, 3819, 3843 |
| BalI | TGGCCA | 6 cut(s) | 1234, 1773, 3211, 4497, 4678, 5051 |
| BamHI | GGATCC | 3 cut(s) | 350, 371, 719 |
| BanI | GGYRCC | 5 cut(s) | 2568, 3124, 3754, 4889, 5174 |
| BanII | GRGCYC | 8 cut(s) | 82, 156, 177, 285, 421, 1372, 2202, 2651 |
| BarI | GAAGNNNNNNTAC | 2 cut(s) | 2561, 2593 |
| BbrPI | CACGTG | 1 cut(s) | 5008 |
| BbsI | GAAGAC | 4 cut(s) | 1702, 1872, 2873, 4461 |
| Bbv12I | GWGCWC | 4 cut(s) | 156, 177, 285, 2202 |
| BbvCI | CCTCAGC | 1 cut(s) | 636 |
| BceAI | ACGGC | 3 cut(s) | 2556, 2899, 4936 |
| BciVI | GTATCC | 1 cut(s) | 35 |
| BclI | TGATCA | 1 cut(s) | 2631 |
| BcnI | CCSGG | 3 cut(s) | 263, 450, 4081 |
| BcoDI | GTCTC | 5 cut(s) | 390, 1077, 2303, 2692, 3067 |
| BfmI | CTRYAG | 5 cut(s) | 801, 906, 2163, 3576, 4060 |
| BfrI | CTTAAG | 3 cut(s) | 341, 2818, 5018 |
| BfuAI | ACCTGC | 4 cut(s) | 2071, 2151, 3685, 4455 |
| BfuI | GTATCC | 1 cut(s) | 35 |
| BglI | GCCNNNNNGGC | 1 cut(s) | 4032 |
| BlnI | CCTAGG | 4 cut(s) | 1457, 1571, 3142, 4235 |
| BlpI | GCTNAGC | 1 cut(s) | 631 |
| Bme18I | GGWCC | 6 cut(s) | 1461, 3342, 3895, 4077, 4402, 4692 |
| BmrI | ACTGGG | 3 cut(s) | 746, 2753, 3807 |
| BmtI | GCTAGC | 1 cut(s) | 1157 |
| BmuI | ACTGGG | 3 cut(s) | 746, 2753, 3807 |
| BpiI | GAAGAC | 4 cut(s) | 1702, 1872, 2873, 4461 |
| BplI | GAGNNNNNCTC | 2 cut(s) | 1172, 1204 |
| BpmI | CTGGAG | 7 cut(s) | 618, 1572, 2418, 4000, 4041, 4143, 4544 |
| Bpu10I | CCTNAGC | 2 cut(s) | 636, 1300 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 631 |
| BpuEI | CTTGAG | 9 cut(s) | 597, 1617, 2304, 3114, 3212, 4323, 4761, 4835, 5132 |
| BpuMI | CCSGG | 3 cut(s) | 263, 450, 4081 |
| Bsa29I | ATCGAT | 1 cut(s) | 4713 |
| BsaAI | YACGTR | 2 cut(s) | 3822, 5008 |
| BsaBI | GATNNNNATC | 1 cut(s) | 1832 |
| BsaHI | GRCGYC | 1 cut(s) | 2859 |
| BsaI | GGTCTC | 1 cut(s) | 1077 |
| BsaWI | WCCGGW | 3 cut(s) | 1319, 3811, 5223 |
| Bse118I | RCCGGY | 3 cut(s) | 1319, 2182, 3811 |
| Bse21I | CCTNAGG | 1 cut(s) | 988 |
| Bse3DI | GCAATG | 5 cut(s) | 1055, 1158, 2075, 2352, 3495 |
| Bse8I | GATNNNNATC | 1 cut(s) | 1832 |
| BseCI | ATCGAT | 1 cut(s) | 4713 |
| BseJI | GATNNNNATC | 1 cut(s) | 1832 |
| BseMI | GCAATG | 5 cut(s) | 1055, 1158, 2075, 2352, 3495 |
| BseRI | GAGGAG | 4 cut(s) | 3019, 3593, 4653, 4656 |
| BseSI | GKGCMC | 1 cut(s) | 1372 |
| BseYI | CCCAGC | 2 cut(s) | 4566, 5055 |
| BsgI | GTGCAG | 4 cut(s) | 2408, 3180, 4592, 5183 |
| BshNI | GGYRCC | 5 cut(s) | 2568, 3124, 3754, 4889, 5174 |
| BshTI | ACCGGT | 2 cut(s) | 1319, 3811 |
| BshVI | ATCGAT | 1 cut(s) | 4713 |
| BsiHKAI | GWGCWC | 4 cut(s) | 156, 177, 285, 2202 |
| BsiSI | CCGG | 7 cut(s) | 262, 450, 1320, 2183, 3812, 4080, 5224 |
| BslFI | GGGAC | 4 cut(s) | 1297, 2704, 4415, 4618 |
| BsmAI | GTCTC | 5 cut(s) | 390, 1077, 2303, 2692, 3067 |
| BsmFI | GGGAC | 4 cut(s) | 1297, 2704, 4415, 4618 |
| BsmI | GAATGC | 4 cut(s) | 1428, 3500, 4121, 4810 |
| Bso31I | GGTCTC | 1 cut(s) | 1077 |
| Bsp120I | GGGCCC | 1 cut(s) | 1368 |
| Bsp1286I | GDGCHC | 8 cut(s) | 82, 156, 177, 285, 421, 1372, 2202, 2651 |
| Bsp1407I | TGTACA | 1 cut(s) | 2057 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 631 |
| Bsp19I | CCATGG | 1 cut(s) | 4212 |
| BspACI | CCGC | 9 cut(s) | 308, 311, 317, 432, 1258, 1658, 3345, 3368, 3752 |
| BspDI | ATCGAT | 1 cut(s) | 4713 |
| BspHI | TCATGA | 4 cut(s) | 2259, 3504, 4006, 4798 |
| BspMAI | CTGCAG | 4 cut(s) | 805, 2167, 3580, 4064 |
| BspMI | ACCTGC | 4 cut(s) | 2071, 2151, 3685, 4455 |
| BspOI | GCTAGC | 1 cut(s) | 1157 |
| BspT107I | GGYRCC | 5 cut(s) | 2568, 3124, 3754, 4889, 5174 |
| BspTI | CTTAAG | 3 cut(s) | 341, 2818, 5018 |
| BspTNI | GGTCTC | 1 cut(s) | 1077 |
| BsrBI | CCGCTC | 1 cut(s) | 434 |
| BsrDI | GCAATG | 5 cut(s) | 1055, 1158, 2075, 2352, 3495 |
| BsrFI | RCCGGY | 3 cut(s) | 1319, 2182, 3811 |
| BsrGI | TGTACA | 1 cut(s) | 2057 |
| BssAI | RCCGGY | 3 cut(s) | 1319, 2182, 3811 |
| BssNAI | GTATAC | 1 cut(s) | 1017 |
| BssNI | GRCGYC | 1 cut(s) | 2859 |
| BssT1I | CCWWGG | 7 cut(s) | 1457, 1571, 2230, 3142, 4212, 4235, 4583 |
| Bst1107I | GTATAC | 1 cut(s) | 1017 |
| Bst4CI | ACNGT | 9 cut(s) | 292, 712, 1014, 1066, 1116, 1335, 2035, 2737, 2937 |
| Bst6I | CTCTTC | 2 cut(s) | 406, 1818 |
| BstACI | GRCGYC | 1 cut(s) | 2859 |
| BstAFI | CTTAAG | 3 cut(s) | 341, 2818, 5018 |
| BstAPI | GCANNNNNTGC | 3 cut(s) | 866, 3572, 3761 |
| BstAUI | TGTACA | 1 cut(s) | 2057 |
| BstBAI | YACGTR | 2 cut(s) | 3822, 5008 |
| BstC8I | GCNNGC | 8 cut(s) | 215, 1155, 1662, 2215, 4033, 4380, 4575, 4977 |
| BstDSI | CCRYGG | 1 cut(s) | 4212 |
| BstEII | GGTNACC | 2 cut(s) | 917, 3667 |
| BstENI | CCTNNNNNAGG | 2 cut(s) | 1303, 1469 |
| BstMAI | GTCTC | 5 cut(s) | 390, 1077, 2303, 2692, 3067 |
| BstNSI | RCATGY | 3 cut(s) | 1479, 1991, 3319 |
| BstPI | GGTNACC | 2 cut(s) | 917, 3667 |
| BstSFI | CTRYAG | 5 cut(s) | 801, 906, 2163, 3576, 4060 |
| BstSLI | GKGCMC | 1 cut(s) | 1372 |
| BstSNI | TACGTA | 1 cut(s) | 3822 |
| BstV2I | GAAGAC | 4 cut(s) | 1702, 1872, 2873, 4461 |
| BstX2I | RGATCY | 5 cut(s) | 350, 371, 719, 805, 911 |
| BstXI | CCANNNNNNTGG | 1 cut(s) | 4566 |
| BstYI | RGATCY | 5 cut(s) | 350, 371, 719, 805, 911 |
| BstZ17I | GTATAC | 1 cut(s) | 1017 |
| Bsu15I | ATCGAT | 1 cut(s) | 4713 |
| Bsu36I | CCTNAGG | 1 cut(s) | 988 |
| BsuI | GTATCC | 1 cut(s) | 35 |
| BsuTUI | ATCGAT | 1 cut(s) | 4713 |
| BtgI | CCRYGG | 1 cut(s) | 4212 |
| BtsI | GCAGTG | 7 cut(s) | 1926, 2160, 2385, 2454, 2802, 4605, 5171 |
| BveI | ACCTGC | 4 cut(s) | 2071, 2151, 3685, 4455 |
| Cac8I | GCNNGC | 8 cut(s) | 215, 1155, 1662, 2215, 4033, 4380, 4575, 4977 |
| CciI | TCATGA | 4 cut(s) | 2259, 3504, 4006, 4798 |
| Cfr10I | RCCGGY | 3 cut(s) | 1319, 2182, 3811 |
| ClaI | ATCGAT | 1 cut(s) | 4713 |
| CspAI | ACCGGT | 2 cut(s) | 1319, 3811 |
| CspCI | CAANNNNNGTGG | 6 cut(s) | 2314, 2349, 2742, 2777, 3671, 3706 |
| DraI | TTTAAA | 4 cut(s) | 1210, 2724, 3619, 4512 |
| DraIII | CACNNNGTG | 2 cut(s) | 4999, 5154 |
| EaeI | YGGCCR | 6 cut(s) | 1232, 1771, 3209, 4495, 4676, 5049 |
| Eam1104I | CTCTTC | 2 cut(s) | 406, 1818 |
| EarI | CTCTTC | 2 cut(s) | 406, 1818 |
| Ecl136II | GAGCTC | 4 cut(s) | 154, 175, 283, 2200 |
| Eco105I | TACGTA | 1 cut(s) | 3822 |
| Eco130I | CCWWGG | 7 cut(s) | 1457, 1571, 2230, 3142, 4212, 4235, 4583 |
| Eco147I | AGGCCT | 3 cut(s) | 1187, 1563, 2560 |
| Eco24I | GRGCYC | 8 cut(s) | 82, 156, 177, 285, 421, 1372, 2202, 2651 |
| Eco31I | GGTCTC | 1 cut(s) | 1077 |
| Eco32I | GATATC | 2 cut(s) | 2239, 2454 |
| Eco47I | GGWCC | 6 cut(s) | 1461, 3342, 3895, 4077, 4402, 4692 |
| Eco53kI | GAGCTC | 4 cut(s) | 154, 175, 283, 2200 |
| Eco57I | CTGAAG | 5 cut(s) | 129, 1884, 2381, 3852, 4263 |
| Eco72I | CACGTG | 1 cut(s) | 5008 |
| Eco81I | CCTNAGG | 1 cut(s) | 988 |
| Eco91I | GGTNACC | 2 cut(s) | 917, 3667 |
| EcoICRI | GAGCTC | 4 cut(s) | 154, 175, 283, 2200 |
| EcoNI | CCTNNNNNAGG | 2 cut(s) | 1303, 1469 |
| EcoO109I | RGGNCCY | 8 cut(s) | 1368, 1369, 1461, 1897, 3514, 3895, 4402, 4692 |
| EcoO65I | GGTNACC | 2 cut(s) | 917, 3667 |
| EcoRI | GAATTC | 3 cut(s) | 167, 1262, 2255 |
| EcoRV | GATATC | 2 cut(s) | 2239, 2454 |
| EcoT14I | CCWWGG | 7 cut(s) | 1457, 1571, 2230, 3142, 4212, 4235, 4583 |
| EcoT22I | ATGCAT | 2 cut(s) | 1173, 3451 |
| EcoT38I | GRGCYC | 8 cut(s) | 82, 156, 177, 285, 421, 1372, 2202, 2651 |
| ErhI | CCWWGG | 7 cut(s) | 1457, 1571, 2230, 3142, 4212, 4235, 4583 |
| FalI | AAGNNNNNCTT | 6 cut(s) | 1967, 1999, 2801, 2833, 3899, 3931 |
| FaqI | GGGAC | 4 cut(s) | 1297, 2704, 4415, 4618 |
| FauI | CCCGC | 1 cut(s) | 1251 |
| FbaI | TGATCA | 1 cut(s) | 2631 |
| FblI | GTMKAC | 2 cut(s) | 410, 1016 |
| FriOI | GRGCYC | 8 cut(s) | 82, 156, 177, 285, 421, 1372, 2202, 2651 |
| GsaI | CCCAGC | 2 cut(s) | 4570, 5059 |
| GsuI | CTGGAG | 7 cut(s) | 618, 1572, 2418, 4000, 4041, 4143, 4544 |
| HapII | CCGG | 7 cut(s) | 262, 450, 1320, 2183, 3812, 4080, 5224 |
| Hin1I | GRCGYC | 1 cut(s) | 2859 |
| HincII | GTYRAC | 1 cut(s) | 565 |
| HindII | GTYRAC | 1 cut(s) | 565 |
| HindIII | AAGCTT | 1 cut(s) | 4431 |
| HpaI | GTTAAC | 1 cut(s) | 565 |
| HpaII | CCGG | 7 cut(s) | 262, 450, 1320, 2183, 3812, 4080, 5224 |
| HpyCH4III | ACNGT | 9 cut(s) | 292, 712, 1014, 1066, 1116, 1335, 2035, 2737, 2937 |
| HpyCH4IV | ACGT | 7 cut(s) | 509, 561, 2859, 3821, 4823, 5007, 5195 |
| HpySE526I | ACGT | 7 cut(s) | 509, 561, 2859, 3821, 4823, 5007, 5195 |
| Hsp92I | GRCGYC | 1 cut(s) | 2859 |
| KflI | GGGWCCC | 1 cut(s) | 4402 |
| KpnI | GGTACC | 2 cut(s) | 2572, 3128 |
| Ksp22I | TGATCA | 1 cut(s) | 2631 |
| KspAI | GTTAAC | 1 cut(s) | 565 |
| MaeII | ACGT | 7 cut(s) | 509, 561, 2859, 3821, 4823, 5007, 5195 |
| MbiI | CCGCTC | 1 cut(s) | 434 |
| MflI | RGATCY | 5 cut(s) | 350, 371, 719, 805, 911 |
| MhlI | GDGCHC | 8 cut(s) | 82, 156, 177, 285, 421, 1372, 2202, 2651 |
| MlsI | TGGCCA | 6 cut(s) | 1234, 1773, 3211, 4497, 4678, 5051 |
| MluNI | TGGCCA | 6 cut(s) | 1234, 1773, 3211, 4497, 4678, 5051 |
| MlyI | GAGTC | 9 cut(s) | 220, 254, 392, 433, 686, 1696, 1994, 2875, 3652 |
| MmeI | TCCRAC | 2 cut(s) | 1030, 3607 |
| Mox20I | TGGCCA | 6 cut(s) | 1234, 1773, 3211, 4497, 4678, 5051 |
| Mph1103I | ATGCAT | 2 cut(s) | 1173, 3451 |
| MroXI | GAANNNNTTC | 1 cut(s) | 3914 |
| MscI | TGGCCA | 6 cut(s) | 1234, 1773, 3211, 4497, 4678, 5051 |
| MslI | CAYNNNNRTG | 7 cut(s) | 189, 1914, 2264, 3822, 4211, 4628, 4887 |
| Msp20I | TGGCCA | 6 cut(s) | 1234, 1773, 3211, 4497, 4678, 5051 |
| MspA1I | CMGCKG | 1 cut(s) | 1628 |
| MspCI | CTTAAG | 3 cut(s) | 341, 2818, 5018 |
| MspI | CCGG | 7 cut(s) | 262, 450, 1320, 2183, 3812, 4080, 5224 |
| MssI | GTTTAAAC | 1 cut(s) | 1210 |
| Mva1269I | GAATGC | 4 cut(s) | 1428, 3500, 4121, 4810 |
| NciI | CCSGG | 3 cut(s) | 263, 450, 4081 |
| NcoI | CCATGG | 1 cut(s) | 4212 |
| NheI | GCTAGC | 1 cut(s) | 1153 |
| NmeAIII | GCCGAG | 1 cut(s) | 284 |
| NmuCI | GTSAC | 5 cut(s) | 246, 678, 3477, 4202, 4933 |
| NsiI | ATGCAT | 2 cut(s) | 1173, 3451 |
| NspI | RCATGY | 3 cut(s) | 1479, 1991, 3319 |
| PagI | TCATGA | 4 cut(s) | 2259, 3504, 4006, 4798 |
| PaqCI | CACCTGC | 1 cut(s) | 3685 |
| PasI | CCCWGGG | 1 cut(s) | 573 |
| PceI | AGGCCT | 3 cut(s) | 1187, 1563, 2560 |
| PciI | ACATGT | 2 cut(s) | 1987, 3315 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 4820 |
| PctI | GAATGC | 4 cut(s) | 1428, 3500, 4121, 4810 |
| PdmI | GAANNNNTTC | 1 cut(s) | 3914 |
| PfeI | GAWTC | 4 cut(s) | 329, 3292, 4056, 5240 |
| PflMI | CCANNNNNTGG | 4 cut(s) | 579, 1230, 1667, 5154 |
| PfoI | TCCNGGA | 1 cut(s) | 4079 |
| PinAI | ACCGGT | 2 cut(s) | 1319, 3811 |
| PleI | GAGTC | 9 cut(s) | 220, 253, 392, 433, 685, 1696, 1994, 2875, 3652 |
| PmaCI | CACGTG | 1 cut(s) | 5008 |
| PmeI | GTTTAAAC | 1 cut(s) | 1210 |
| PmlI | CACGTG | 1 cut(s) | 5008 |
| PpsI | GAGTC | 9 cut(s) | 220, 253, 392, 433, 685, 1696, 1994, 2875, 3652 |
| Ppu21I | YACGTR | 2 cut(s) | 3822, 5008 |
| PpuMI | RGGWCCY | 4 cut(s) | 1461, 3895, 4402, 4692 |
| PscI | ACATGT | 2 cut(s) | 1987, 3315 |
| PshBI | ATTAAT | 2 cut(s) | 672, 2550 |
| Psp124BI | GAGCTC | 4 cut(s) | 156, 177, 285, 2202 |
| Psp1406I | AACGTT | 1 cut(s) | 4823 |
| Psp5II | RGGWCCY | 4 cut(s) | 1461, 3895, 4402, 4692 |
| PspCI | CACGTG | 1 cut(s) | 5008 |
| PspEI | GGTNACC | 2 cut(s) | 917, 3667 |
| PspFI | CCCAGC | 2 cut(s) | 4566, 5055 |
| PspOMI | GGGCCC | 1 cut(s) | 1368 |
| PspPPI | RGGWCCY | 4 cut(s) | 1461, 3895, 4402, 4692 |
| PstI | CTGCAG | 4 cut(s) | 805, 2167, 3580, 4064 |
| PsuI | RGATCY | 5 cut(s) | 350, 371, 719, 805, 911 |
| PvuII | CAGCTG | 1 cut(s) | 1628 |
| RseI | CAYNNNNRTG | 7 cut(s) | 189, 1914, 2264, 3822, 4211, 4628, 4887 |
| SacI | GAGCTC | 4 cut(s) | 156, 177, 285, 2202 |
| SchI | GAGTC | 9 cut(s) | 220, 254, 392, 433, 686, 1696, 1994, 2875, 3652 |
| SduI | GDGCHC | 8 cut(s) | 82, 156, 177, 285, 421, 1372, 2202, 2651 |
| SfcI | CTRYAG | 5 cut(s) | 801, 906, 2163, 3576, 4060 |
| SinI | GGWCC | 6 cut(s) | 1461, 3342, 3895, 4077, 4402, 4692 |
| SmiMI | CAYNNNNRTG | 7 cut(s) | 189, 1914, 2264, 3822, 4211, 4628, 4887 |
| SnaBI | TACGTA | 1 cut(s) | 3822 |
| SseBI | AGGCCT | 3 cut(s) | 1187, 1563, 2560 |
| SsiI | CCGC | 9 cut(s) | 308, 311, 317, 432, 1258, 1658, 3345, 3368, 3752 |
| SstI | GAGCTC | 4 cut(s) | 156, 177, 285, 2202 |
| StuI | AGGCCT | 3 cut(s) | 1187, 1563, 2560 |
| StyI | CCWWGG | 7 cut(s) | 1457, 1571, 2230, 3142, 4212, 4235, 4583 |
| TaaI | ACNGT | 9 cut(s) | 292, 712, 1014, 1066, 1116, 1335, 2035, 2737, 2937 |
| TaiI | ACGT | 7 cut(s) | 512, 564, 2862, 3824, 4826, 5010, 5198 |
| TaqI | TCGA | 8 cut(s) | 84, 171, 1432, 1612, 4042, 4713, 4732, 4963 |
| TatI | WGTACW | 5 cut(s) | 1279, 1335, 2057, 2176, 3835 |
| TauI | GCSGC | 4 cut(s) | 311, 314, 320, 3755 |
| TfiI | GAWTC | 4 cut(s) | 329, 3292, 4056, 5240 |
| TseFI | GTSAC | 5 cut(s) | 246, 678, 3477, 4202, 4933 |
| Tsp45I | GTSAC | 5 cut(s) | 246, 678, 3477, 4202, 4933 |
| Van91I | CCANNNNNTGG | 4 cut(s) | 579, 1230, 1667, 5154 |
| Vha464I | CTTAAG | 3 cut(s) | 341, 2818, 5018 |
| VpaK11BI | GGWCC | 6 cut(s) | 1461, 3342, 3895, 4077, 4402, 4692 |
| VspI | ATTAAT | 2 cut(s) | 672, 2550 |
| XagI | CCTNNNNNAGG | 2 cut(s) | 1303, 1469 |
| XbaI | TCTAGA | 1 cut(s) | 3055 |
| XceI | RCATGY | 3 cut(s) | 1479, 1991, 3319 |
| XcmI | CCANNNNNNNNNTGG | 1 cut(s) | 3734 |
| XmaJI | CCTAGG | 4 cut(s) | 1457, 1571, 3142, 4235 |
| XmiI | GTMKAC | 2 cut(s) | 410, 1016 |
| XmnI | GAANNNNTTC | 1 cut(s) | 3914 |
| ZraI | GACGTC | 1 cut(s) | 2860 |
| Zsp2I | ATGCAT | 2 cut(s) | 1173, 3451 |