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The table below summarizes the frequencies with which restriction endonuclease sites occur in commonly
used DNA molecules. Detailed restriction maps can be found on DNA sequences and
maps.
The sites listed in these tables were identified by computer analysis of published sequences. Although we have tried
to ensure their accuracy, the sites have not necessarily been confirmed by experimentation. When the same specificity
is displayed by several enzymes, the site is listed by the name of the enzyme that is available from New England Biolabs.
Other enzymes with the same specificity are listed in the table of isoschizomers.
Recognition sequences are written 5´ to 3´.
A | B | C | D | E | F | H | I | K | M | N | P | R | S | T | X | Z |
| Enzyme |
Sequence |
Adeno-2 |
LITMUS28i |
pBR322 |
pGPS1.1 |
pKLAC1 |
pMXB10 |
pTWIN1 |
pUC19 |
| Lambda |
M13mp18 |
pGLuc-Basic |
fx174 |
pMAL-p4X |
pNEBR-X1Hygro |
pTYB1 |
T7 |
| AatII | GACGTC | 3 | 10 | 1 | 0 | 1 | 1 | 1 | 1 | 0 | 0 | 1 | 1 | 1 | 0 | 1 | 1 | | Acc65I | GGTACC | 8 | 2 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 0 | 0 | 0 | 0 | 1 | 1 | 5 | | AccI | GTMKAC | 17 | 9 | 0 | 1 | 2 | 4 | 3 | 2 | 5 | 2 | 4 | 1 | 4 | 3 | 1 | 33 | | AciI | CCGC | 582 | 516 | 27 | 42 | 67 | 64 | 52 | 36 | 82 | 92 | 111 | 74 | 104 | 103 | 34 | 199 | | AclI | AACGTT | 3 | 7 | 3 | 2 | 4 | 2 | 2 | 3 | 2 | 6 | 11 | 3 | 13 | 13 | 2 | 19 | | AcuI | CTGAAG | 23 | 40 | 2 | 0 | 2 | 4 | 1 | 0 | 8 | 4 | 4 | 4 | 2 | 2 | 2 | 1 | | AfeI | AGCGCT | 13 | 2 | 0 | 1 | 4 | 0 | 3 | 0 | 0 | 2 | 1 | 0 | 1 | 1 | 0 | 0 | | AflII | CTTAAG | 4 | 3 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 19 | | AflIII | ACRYGT | 25 | 20 | 1 | 3 | 1 | 1 | 0 | 2 | 4 | 2 | 2 | 3 | 3 | 4 | 1 | 23 | | AgeI | ACCGGT | 5 | 13 | 1 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 1 | 0 | 1 | 1 | 0 | 2 | | AhdI | GACNNNNNGTC | 9 | 9 | 2 | 0 | 1 | 2 | 0 | 1 | 1 | 1 | 2 | 2 | 3 | 2 | 1 | 14 | | AleI | CACNNNNGTG | 10 | 20 | 0 | 1 | 0 | 0 | 0 | 1 | 1 | 0 | 0 | 0 | 0 | 2 | 0 | 8 | | AluI | AGCT | 158 | 143 | 15 | 27 | 17 | 25 | 23 | 24 | 38 | 32 | 35 | 31 | 37 | 31 | 15 | 140 | | AlwI | GGATC | 35 | 58 | 10 | 3 | 12 | 20 | 16 | 0 | 20 | 14 | 16 | 17 | 15 | 17 | 10 | 1 | | AlwNI | CAGNNNCTG | 25 | 41 | 1 | 1 | 1 | 2 | 0 | 0 | 5 | 2 | 1 | 2 | 1 | 2 | 1 | 15 | | ApaI | GGGCCC | 12 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 1 | 1 | 1 | 0 | 0 | | ApaLI | GTGCAC | 7 | 4 | 2 | 0 | 3 | 3 | 0 | 1 | 3 | 6 | 3 | 4 | 4 | 4 | 3 | 1 | | ApeKI | GCWGC | 179 | 199 | 9 | 10 | 21 | 23 | 10 | 14 | 26 | 29 | 28 | 24 | 29 | 26 | 12 | 116 | | ApoI | RAATTY | 29 | 58 | 3 | 11 | 1 | 3 | 3 | 7 | 20 | 8 | 6 | 9 | 5 | 6 | 1 | 13 | | AscI | GGCGCGCC | 2 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | | AseI | ATTAAT | 3 | 17 | 1 | 7 | 1 | 4 | 3 | 2 | 5 | 4 | 8 | 2 | 11 | 10 | 3 | 12 | | AsiSI | GCGATCGC | 1 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | | AvaI | CYCGRG | 40 | 8 | 2 | 2 | 1 | 3 | 4 | 1 | 2 | 1 | 3 | 2 | 3 | 2 | 1 | 4 | | AvaII | GGWCC | 73 | 35 | 2 | 1 | 8 | 3 | 9 | 1 | 7 | 9 | 6 | 10 | 7 | 7 | 2 | 54 | | AvrII | CCTAGG | 2 | 2 | 1 | 0 | 0 | 1 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 3 | | BaeGI <top> | GKGCMC | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | | BaeI | ACNNNNGTAYC | 5 | 10 | 1 | 3 | 0 | 0 | 0 | 1 | 2 | 0 | 0 | 0 | 0 | 1 | 0 | 3 | | BamHI | GGATCC | 3 | 5 | 1 | 1 | 1 | 1 | 3 | 0 | 2 | 1 | 1 | 1 | 1 | 2 | 1 | 0 | | BamHI-HF™ | GGATCC | 3 | 5 | 1 | 1 | 1 | 1 | 3 | 0 | 2 | 1 | 1 | 1 | 1 | 2 | 1 | 0 | | BanI | GGYRCC | 57 | 25 | 4 | 7 | 9 | 6 | 9 | 3 | 8 | 5 | 9 | 5 | 8 | 7 | 4 | 33 | | BanII | GRGCYC | 57 | 7 | 2 | 2 | 2 | 6 | 4 | 0 | 4 | 3 | 2 | 4 | 3 | 4 | 1 | 1 | | BbsI | GAAGAC | 27 | 24 | 0 | 0 | 3 | 1 | 3 | 3 | 3 | 3 | 3 | 0 | 4 | 5 | 0 | 38 | | BbvCI | CCTCAGC | 9 | 7 | 0 | 2 | 0 | 0 | 1 | 3 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 10 | | BbvI | GCAGC | 179 | 199 | 9 | 10 | 21 | 23 | 10 | 14 | 26 | 29 | 28 | 24 | 29 | 26 | 12 | 116 | | BccI | CCATC | 62 | 145 | 5 | 14 | 9 | 11 | 14 | 12 | 22 | 19 | 18 | 11 | 18 | 20 | 3 | 121 | | BceAI | ACGGC | 80 | 115 | 3 | 7 | 3 | 5 | 4 | 11 | 14 | 14 | 18 | 9 | 13 | 13 | 2 | 47 | | BcgI | CGANNNNNNTGC | 10 | 28 | 1 | 0 | 3 | 1 | 1 | 2 | 5 | 3 | 3 | 1 | 4 | 5 | 1 | 19 | | BciVI | GTATCC | 9 | 26 | 2 | 0 | 2 | 4 | 1 | 4 | 3 | 4 | 5 | 2 | 5 | 4 | 2 | 23 | | BclI | TGATCA | 5 | 8 | 0 | 0 | 0 | 1 | 0 | 0 | 2 | 2 | 2 | 0 | 2 | 2 | 0 | 1 | | BfaI | CTAG | 54 | 13 | 7 | 5 | 5 | 10 | 7 | 3 | 21 | 6 | 7 | 13 | 12 | 7 | 4 | 60 | | BfuAI | ACCTGC | 39 | 41 | 0 | 3 | 1 | 4 | 1 | 3 | 4 | 4 | 4 | 1 | 3 | 2 | 1 | 18 | | BfuCI | GATC | 87 | 116 | 16 | 6 | 22 | - | 24 | 0 | - | - | - | - | 25 | 26 | 15 | 6 | | BglI | GCCNNNNNGGC | 20 | 29 | 2 | 1 | 3 | 1 | 2 | 0 | 3 | 2 | 2 | 2 | 2 | 2 | 2 | 2 | | BglII | AGATCT | 11 | 6 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 0 | 0 | 1 | 0 | 1 | | BlpI | GCTNAGC | 8 | 6 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 2 | 0 | 1 | 1 | 0 | 20 | | BmgBI | CACGTC | 15 | 17 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 1 | 0 | 0 | 0 | 0 | 8 | | BmrI | ACTGGG | 22 | 4 | 2 | 1 | 5 | 3 | 5 | 0 | 2 | 6 | 11 | 2 | 12 | 11 | 2 | 6 | | BmtI | GCTAGC | 4 | 1 | 0 | 0 | 1 | 0 | 1 | 0 | 4 | 0 | 0 | 1 | 1 | 1 | 0 | 1 | | BpmI | CTGGAG | 32 | 25 | 1 | 2 | 4 | 4 | 4 | 3 | 3 | 4 | 5 | 3 | 6 | 5 | 1 | 23 | | Bpu10I | CCTNAGC | 23 | 19 | 0 | 4 | 1 | 0 | 3 | 7 | 0 | 1 | 0 | 0 | 0 | 2 | 0 | 39 | | BpuEI | CTTGAG | 19 | 13 | 4 | 4 | 6 | 6 | 2 | 2 | 7 | 5 | 6 | 4 | 7 | 9 | 4 | 56 | | BsaAI | YACGTR | 22 | 14 | 2 | 5 | 1 | 2 | 6 | 2 | 4 | 2 | 2 | 1 | 2 | 4 | 0 | 35 | | BsaBI | GATNNNNATC | 2 | 21 | 0 | 2 | 1 | 2 | 1 | 2 | 2 | 2 | 2 | 1 | 1 | 2 | 0 | 7 | | BsaHI | GRCGYC | 44 | 40 | 2 | 1 | 6 | 5 | 5 | 7 | 6 | 5 | 12 | 5 | 12 | 8 | 3 | 8 | | BsaI | GGTCTC | 18 | 2 | 1 | 0 | 1 | 1 | 0 | 0 | 3 | 3 | 2 | 3 | 3 | 1 | 1 | 29 | | BsaJI | CCNNGG | 234 | 105 | 6 | 9 | 8 | 21 | 16 | 6 | 20 | 12 | 19 | 19 | 17 | 14 | 5 | 85 | | BsaWI | WCCGGW | 28 | 81 | 4 | 6 | 5 | 4 | 4 | 3 | 9 | 7 | 9 | 9 | 9 | 7 | 3 | 32 | | BsaXI | ACNNNNNCTCC | 29 | 19 | 1 | 4 | 0 | 3 | 1 | 0 | 3 | 2 | 2 | 3 | 3 | 3 | 1 | 12 | | BseRI | GAGGAG | 63 | 19 | 0 | 1 | 0 | 1 | 0 | 2 | 2 | 0 | 0 | 0 | 1 | 0 | 0 | 13 | | BseYI | CCCAGC | 31 | 32 | 1 | 3 | 2 | 5 | 1 | 2 | 3 | 4 | 4 | 3 | 4 | 4 | 1 | 29 | | BsgI | GTGCAG | 34 | 41 | 0 | 0 | 1 | 3 | 1 | 0 | 4 | 6 | 5 | 1 | 5 | 4 | 0 | 21 | | BsiEI | CGRYCG | 50 | 22 | 4 | 3 | 7 | 7 | 6 | 1 | 11 | 8 | 10 | 12 | 9 | 7 | 5 | 17 | | BsiHKAI | GWGCWC | 38 | 28 | 4 | 3 | 8 | 8 | 5 | 3 | 7 | 10 | 6 | 6 | 7 | 6 | 5 | 24 | | BsiWI | CGTACG | 4 | 1 | 1 | 0 | 0 | 0 | 0 | 2 | 0 | 1 | 2 | 0 | 1 | 0 | 0 | 0 | | BslI | CCNNNNNNNGG | 216 | 176 | 8 | 17 | 20 | 15 | 21 | 19 | 18 | 19 | 32 | 28 | 31 | 27 | 6 | 90 | | BsmAI | GTCTC | 60 | 37 | 3 | 5 | 3 | 3 | 3 | 4 | 11 | 9 | 8 | 8 | 11 | 9 | 4 | 95 | | BsmBI | CGTCTC | 21 | 14 | 1 | 1 | 1 | 0 | 1 | 0 | 2 | 2 | 2 | 2 | 2 | 2 | 2 | 16 | | BsmFI | GGGAC | 59 | 38 | 0 | 2 | 4 | 7 | 5 | 2 | 4 | 2 | 4 | 5 | 6 | 4 | 0 | 46 | | BsmI | GAATGC | 10 | 46 | 1 | 1 | 1 | 1 | 4 | 4 | 3 | 1 | 2 | 7 | 1 | 0 | 0 | 15 | | BsoBI | CYCGRG | 40 | 8 | 2 | 2 | 1 | 3 | 4 | 1 | 2 | 1 | 3 | 2 | 3 | 2 | 1 | 4 | | Bsp1286I | GDGCHC | 105 | 38 | 5 | 5 | 10 | 15 | 8 | 3 | 15 | 13 | 10 | 9 | 11 | 10 | 5 | 40 | | BspCNI | CTCAG | 75 | 80 | 4 | 24 | 7 | 8 | 5 | 10 | 10 | 12 | 18 | 6 | 21 | 23 | 5 | 142 | | BspDI | ATCGAT | 2 | 15 | 0 | 2 | 1 | 0 | 2 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 3 | | BspEI | TCCGGA | 8 | 24 | 0 | 0 | 1 | 0 | 2 | 0 | 2 | 2 | 2 | 5 | 2 | 1 | 0 | 0 | | BspHI | TCATGA | 3 | 8 | 2 | 1 | 4 | 2 | 4 | 3 | 2 | 2 | 2 | 2 | 2 | 2 | 3 | 13 | | BspMI | ACCTGC | 39 | 41 | 0 | 3 | 1 | 4 | 1 | 3 | 4 | 4 | 4 | 1 | 3 | 2 | 1 | 18 | | BspQI | GCTCTTC | 7 | 10 | 0 | 0 | 1 | 3 | 1 | 1 | 2 | 1 | 1 | 1 | 2 | 1 | 1 | 4 | | BsrBI | CCGCTC | 28 | 17 | 3 | 4 | 2 | 7 | 1 | 1 | 6 | 5 | 9 | 12 | 9 | 9 | 3 | 17 | | BsrDI | GCAATG | 14 | 44 | 2 | 3 | 2 | 3 | 1 | 4 | 7 | 4 | 3 | 2 | 4 | 4 | 2 | 18 | | BsrFI | RCCGGY | 40 | 61 | 2 | 1 | 7 | 6 | 7 | 0 | 9 | 3 | 8 | 4 | 11 | 8 | 1 | 3 | | BsrGI | TGTACA | 5 | 5 | 0 | 1 | 0 | 0 | 0 | 0 | 1 | 0 | 1 | 1 | 2 | 1 | 0 | 13 | | BsrI | ACTGG | 86 | 110 | 11 | 19 | 19 | 14 | 16 | 9 | 23 | 30 | 34 | 16 | 35 | 29 | 11 | 118 | | BssHII | GCGCGC | 52 | 6 | 1 | 0 | 0 | 1 | 0 | 1 | 2 | 2 | 2 | 1 | 1 | 1 | 0 | 1 | | BssKI | CCNGG | 233 | 185 | 9 | 11 | 16 | 24 | 16 | 3 | 25 | 31 | 50 | 15 | 49 | 42 | 12 | 11 | | BssSI | CACGAG | 11 | 8 | 2 | 0 | 3 | 4 | 2 | 2 | 5 | 3 | 2 | 4 | 2 | 4 | 3 | 31 | | BstAPI | GCANNNNNTGC | 20 | 34 | 0 | 0 | 2 | 2 | 1 | 2 | 3 | 2 | 3 | 3 | 3 | 2 | 1 | 12 | | BstBI | TTCGAA | 1 | 7 | 1 | 0 | 0 | 1 | 0 | 0 | 2 | 0 | 0 | 1 | 0 | 1 | 0 | 7 | | BstEII | GGTNACC | 10 | 13 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 1 | 0 | 1 | 1 | 0 | 1 | | BstNI | CCWGG | 136 | 71 | 5 | 7 | 6 | 14 | 9 | 2 | 15 | 17 | 22 | 8 | 22 | 19 | 5 | 2 | | BstUI | CGCG | 303 | 157 | 11 | 17 | 23 | 17 | 22 | 14 | 26 | 35 | 38 | 30 | 42 | 36 | 10 | 65 | | BstXI | CCANNNNNNTGG | 10 | 13 | 0 | 0 | 0 | 0 | 0 | 3 | 2 | 4 | 3 | 0 | 4 | 3 | 0 | 11 | | BstXI | CCANNNNNNTGG | 10 | 13 | 0 | 0 | 0 | 0 | 0 | 3 | 2 | 4 | 3 | 0 | 4 | 3 | 0 | 11 | | BstYI | RGATCY | 22 | 21 | 8 | 2 | 8 | 14 | 11 | 0 | 13 | 11 | 11 | 8 | 10 | 12 | 7 | 2 | | BstZ17I | GTATAC | 3 | 3 | 0 | 0 | 1 | 1 | 0 | 0 | 3 | 1 | 1 | 0 | 1 | 1 | 0 | 8 | | Bsu36I | CCTNAGG | 7 | 2 | 0 | 1 | 0 | 0 | 1 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 30 | | BtgI | CCRYGG | 82 | 46 | 1 | 2 | 2 | 7 | 4 | 3 | 6 | 3 | 3 | 7 | 2 | 1 | 0 | 26 | | BtgZI | GCGATG | 23 | 45 | 2 | 4 | 3 | 6 | 4 | 2 | 4 | 7 | 7 | 2 | 4 | 3 | 0 | 24 | | BtsCI | GGATG | 78 | 150 | 4 | 4 | 12 | 11 | 13 | 8 | 19 | 19 | 15 | 9 | 14 | 12 | 5 | 97 | | BtsI | GCAGTG | 22 | 34 | 2 | 1 | 2 | 5 | 2 | 1 | 7 | 5 | 4 | 7 | 4 | 4 | 3 | 20 | | Cac8I <top> | GCNNGC | 285 | 238 | 12 | 28 | 31 | 33 | 29 | 19 | 35 | 40 | 46 | 31 | 48 | 47 | 14 | 104 | | ClaI | ATCGAT | 2 | 15 | 0 | 2 | 1 | 0 | 2 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 3 | | CspCI | CAANNNNNGTGG | 19 | 19 | 0 | 0 | 2 | 0 | 4 | 3 | 1 | 0 | 0 | 0 | 2 | 2 | 0 | 26 | | CviAII | CATG | 183 | 181 | 9 | 14 | 26 | 23 | 38 | 22 | 38 | 25 | 27 | 24 | 24 | 30 | 11 | 148 | | CviKI-1 | RGCY | 680 | 692 | 46 | 103 | 73 | 101 | 85 | 69 | 131 | 100 | 119 | 105 | 122 | 119 | 44 | 562 | | CviQI | GTAC | 83 | 113 | 3 | 19 | 3 | 3 | 17 | 11 | 17 | 8 | 12 | 11 | 8 | 9 | 3 | 168 | | DdeI <top> | CTNAG | 97 | 104 | 4 | 30 | 8 | 9 | 21 | 14 | 17 | 12 | 18 | 9 | 21 | 26 | 6 | 282 | | DpnI | GATC | 87 | 116 | 16 | 6 | 22 | 33 | 24 | 0 | 36 | 26 | 27 | 29 | 25 | 26 | 15 | 6 | | DpnII | GATC | 87 | 116 | 16 | 6 | 22 | 33 | 24 | 0 | 36 | 26 | 27 | 29 | 25 | 26 | 15 | 6 | | DraI | TTTAAA | 12 | 13 | 2 | 5 | 3 | 3 | 4 | 2 | 5 | 2 | 1 | 5 | 4 | 3 | 3 | 9 | | DraIII | CACNNNGTG | 10 | 10 | 1 | 1 | 0 | 1 | 1 | 1 | 2 | 1 | 1 | 3 | 1 | 1 | 0 | 16 | | DrdI | GACNNNNNNGTC | 6 | 3 | 2 | 1 | 2 | 3 | 2 | 1 | 5 | 3 | 4 | 5 | 4 | 4 | 2 | 11 | | EaeI <top> | YGGCCR | 70 | 39 | 2 | 3 | 6 | 10 | 7 | 2 | 10 | 5 | 5 | 7 | 4 | 4 | 3 | 2 | | EagI | CGGCCG | 19 | 2 | 0 | 0 | 1 | 2 | 3 | 0 | 4 | 0 | 2 | 4 | 2 | 2 | 0 | 0 | | EagI-HF™ | CGGCCG | 19 | 2 | 0 | 0 | 1 | 2 | 3 | 0 | 4 | 0 | 2 | 4 | 2 | 2 | 0 | 0 | | EarI | CTCTTC | 29 | 34 | 2 | 2 | 2 | 4 | 3 | 2 | 11 | 7 | 6 | 4 | 5 | 4 | 3 | 46 | | EciI | GGCGGA | 29 | 32 | 3 | 2 | 4 | 9 | 4 | 2 | 7 | 7 | 9 | 4 | 9 | 11 | 3 | 2 | | EcoNI | CCTNNNNNAGG | 10 | 9 | 0 | 0 | 1 | 0 | 2 | 0 | 3 | 0 | 2 | 0 | 2 | 1 | 0 | 1 | | EcoO109I | RGGNCCY | 44 | 3 | 0 | 0 | 4 | 0 | 5 | 0 | 1 | 2 | 1 | 2 | 1 | 2 | 1 | 22 | | EcoP15I | CAGCAG | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | | EcoRI | GAATTC | 5 | 5 | 1 | 1 | 1 | 1 | 1 | 0 | 4 | 1 | 1 | 3 | | 
