All restriction endonuclease recognition specificities available from New England Biolabs are listed below. For enzymes that recognize non-palindromic sequences, the complementary sequence of each strand is listed. For example, CCTC(7/6) and (6/7)GAGG both represent an MnlI (NEB #R0163) site.
All recognition sequences are written 5´ to 3´ using the single letter code nomenclature with the point of cleavage indicated by a "/".
Numbers in parentheses indicate point of cleaveage for non-palindromic enzymes.
For example, GGTCTC(1/5) indicates cleavage at:
5´ ...GGTCTCN/...3´
3´ ...CCAGAGNNNNN/...5´
| Recognition Sequence | Enzyme |
|---|---|
| AA/CGTT | AclI |
| A/AGCTT | HindIII HindIII-HF® |
| AAT/ATT | SspI SspI-HF® |
| /AATT | MluCI |
| A/CATGT | PciI |
| A/CCGGT | AgeI AgeI-HF® |
| ACCTGC(4/8) | BspMI BfuAI |
| A/CCWGGT | SexAI |
| A/CGCGT | MluI MluI-HF® |
| ACGGC(12/14) | BceAI |
| A/CGT | HpyCH4IV |
| ACN/GT | HpyCH4III |
| (10/15)ACNNNNGTAYC(12/7) | BaeI |
| (9/12)ACNNNNNCTCC(10/7) | BsaXI |
| A/CRYGT | AflIII |
| A/CTAGT | SpeI SpeI-HF® |
| ACTGG(1/-1) | BsrI |
| ACTGGG(5/4) | BmrI |
| A/GATCT | BglII |
| AGC/GCT | AfeI |
| AG/CT | AluI |
| AGG/CCT | StuI |
| AGT/ACT | ScaI-HF® |
| AT/CGAT | BspDI ClaI |
| ATCTATGTCGGGTGCGGAGAAAGAGGTAAT(-15/-19) | PI-SceI |
| ATGCA/T | NsiI-HF® NsiI |
| AT/TAAT | AseI |
| ATTT/AAAT | SwaI |
| (11/13)CAANNNNNGTGG(12/10) | CspCI |
| C/AATTG | MfeI MfeI-HF® |
| CACGAG | Nb.BssSI |
| CACGAG(-5/-1) | BssSI-v2 |
| CACGTC(-3/-3) | BmgBI |
| CAC/GTG | PmlI |
| CACNNN/GTG | DraIII-HF® |
| CACNN/NNGTG | AleI-v2 |
| CAGCAG(25/27) | EcoP15I |
| CAG/CTG | PvuII PvuII-HF® |
| CAGNNN/CTG | AlwNI |
| CAGTG(2/0) | BtsIMutI |
| CA/TATG | NdeI |
| C/ATG | CviAII |
| /CATG | FatI |
| CATG/ | NlaIII |
| CAYNN/NNRTG | MslI |
| CC(12/16) | FspEI |
| CCANNNNN/NNNNTGG | XcmI |
| CCANNNNN/NTGG | BstXI |
| CCANNNN/NTGG | PflMI |
| CCATC(4/5) | BccI |
| C/CATGG | NcoI NcoI-HF® |
| CCCAGC(-5/-1) | BseYI |
| CCCGC(4/6) | FauI |
| C/CCGGG | XmaI TspMI |
| CCC/GGG | SmaI |
| (0/-1)CCD | Nt.CviPII |
| CCDG(10/14) | LpnPI |
| CCGC(-3/-1) | AciI |
| CCGC/GG | SacII |
| CCGCTC(-3/-3) | BsrBI |
| C/CGG | MspI HpaII |
| CC/NGG | ScrFI |
| /CCNGG | StyD4I |
| C/CNNGG | BsaJI |
| CCNNNNN/NNGG | BslI |
| C/CRYGG | BtgI |
| CC/SGG | NciI |
| C/CTAGG | AvrII |
| CCTC(7/6) | MnlI |
| CCTCAGC(-5/-2) | BbvCI |
| CCTCAGC(-5/-7) | Nt.BbvCI |
| CCTCAGC | Nb.BbvCI |
| CCTGCA/GG | SbfI SbfI-HF® |
| CCTNAGC(-5/-2) | Bpu10I |
| CC/TNAGG | Bsu36I |
| CCTNN/NNNAGG | EcoNI |
| CCTTC(6/5) | HpyAV |
| CC/WGG | BstNI |
| /CCWGG | PspGI |
| C/CWWGG | StyI-HF® StyI |
| (10/12)CGANNNNNNTGC(12/10) | BcgI |
| CGAT/CG | PvuI PvuI-HF® |
| CG/CG | BstUI |
| C/GGCCG | EagI-HF® EagI |
| CG/GWCCG | RsrII |
| CGRY/CG | BsiEI |
| C/GTACG | BsiWI BsiWI-HF® |
| CGTCTC(1/5) | Esp3I BsmBI |
| CGWCG/ | Hpy99I |
| CMG/CKG | MspA1I |
| CNNNNNNNNNNN/NNNNNNNNNG | AbaSI |
| CNNR(9/13) | MspJI |
| CR/CCGGYG | SgrAI |
| C/TAG | BfaI |
| CTCAG(9/7) | BspCNI |
| C/TCGAG | PaeR7I XhoI |
| CTCTTC(1/4) | EarI |
| CTGAAG(16/14) | AcuI |
| CTGCA/G | PstI PstI-HF® |
| CTGGAG(16/14) | BpmI |
| C/TNAG | DdeI |
| C/TRYAG | SfcI |
| C/TTAAG | AflII |
| CTTGAG(16/14) | BpuEI |
| C/TYRAG | SmlI |
| C/YCGRG | AvaI BsoBI |
| GAAGA(8/7) | MboII |
| GAAGAC(2/6) | BbsI-HF® BbsI |
| GAANN/NNTTC | XmnI |
| GAATGC(1/-1) | BsmI |
| GAATGC | Nb.BsmI |
| G/AATTC | EcoRI EcoRI-HF® |
| GACGC(5/10) | HgaI |
| GAC/GTC | ZraI |
| GACGT/C | AatII |
| GACN/NNGTC | PflFI Tth111I |
| GACNN/NNGTC | PshAI |
| GACNNN/NNGTC | AhdI |
| GACNNNN/NNGTC | DrdI |
| GAG/CTC | Eco53kI |
| GAGCT/C | SacI-HF® SacI |
| GAGGAG(10/8) | BseRI |
| GAGTC(4/5) | PleI |
| GAGTC(4/-5) | Nt.BstNBI |
| GAGTC(5/5) | MlyI |
| G/ANTC | HinfI |
| GAT/ATC | EcoRV EcoRV-HF® |
| GA/TC | DpnI |
| /GATC | Sau3AI DpnII MboI |
| GATNN/NNATC | BsaBI |
| G/AWTC | TfiI |
| GCAATG | Nb.BsrDI |
| GCAATG(2/0) | BsrDI |
| GCAGC(8/12) | BbvI |
| GCAGTG | Nb.BtsI |
| GCAGTG(2/0) | BtsI-v2 |
| GCANNNN/NTGC | BstAPI |
| GCATC(5/9) | SfaNI |
| GCATG/C | SphI-HF® SphI |
| GCCC/GGGC | SrfI |
| GCCGAG(21/19) | NmeAIII |
| G/CCGGC | NgoMIV |
| GCC/GGC | NaeI |
| GCCNNNN/NGGC | BglI |
| GCGAT/CGC | AsiSI |
| GCGATG(10/14) | BtgZI |
| G/CGC | HinP1I |
| GCG/C | HhaI |
| G/CGCGC | BssHII |
| GC/GGCCGC | NotI NotI-HF® |
| GC/NGC | Fnu4HI |
| GCN/NGC | Cac8I |
| GCNNNNN/NNGC | MwoI |
| G/CTAGC | NheI-HF® NheI |
| GCTAG/C | BmtI-HF® BmtI |
| GCTCTTC(1/4) | BspQI SapI |
| GCTCTTC(1/-7) | Nt.BspQI |
| GC/TNAGC | BlpI |
| G/CWGC | TseI ApeKI |
| GDGCH/C | Bsp1286I |
| GGATC(4/-5) | Nt.AlwI |
| GGATC(4/5) | AlwI |
| G/GATCC | BamHI-HF® BamHI |
| GGATG(2/0) | BtsCI |
| GGATG(9/13) | FokI |
| GG/CC | HaeIII |
| GGCCGG/CC | FseI |
| GGCCNNNN/NGGCC | SfiI |
| GGC/GCC | SfoI |
| GGCGC/C | PluTI |
| GG/CGCC | NarI |
| G/GCGCC | KasI |
| GG/CGCGCC | AscI |
| GGCGGA(11/9) | EciI |
| GGGAC(10/14) | BsmFI |
| GGGCC/C | ApaI |
| G/GGCCC | PspOMI |
| G/GNCC | Sau96I |
| GGN/NCC | NlaIV |
| GGTAC/C | KpnI KpnI-HF® |
| G/GTACC | Acc65I |
| GGTCTC(1/5) | BsaI-HF®v2 BsaI |
| GGTGA(8/7) | HphI |
| G/GTNACC | BstEII BstEII-HF® |
| G/GWCC | AvaII |
| G/GYRCC | BanI |
| GKGCM/C | BaeGI |
| GR/CGYC | BsaHI |
| GRGCY/C | BanII |
| GT/AC | RsaI |
| G/TAC | CviQI |
| GTATAC | BstZ17I-HF® |
| GTATCC(6/5) | BciVI |
| G/TCGAC | SalI-HF® SalI |
| GTCTC(1/-5) | Nt.BsmAI |
| GTCTC(1/5) | BsmAI BcoDI |
| G/TGCAC | ApaLI |
| GTGCAG(16/14) | BsgI |
| GT/MKAC | AccI |
| GTN/NAC | Hpy166II |
| /GTSAC | Tsp45I |
| GTT/AAC | HpaI |
| GTTT/AAAC | PmeI |
| GTY/RAC | HincII |
| GWGCW/C | BsiHKAI |
| NNCASTGNN/ | TspRI |
| R/AATTY | ApoI ApoI-HF |
| RCATG/Y | NspI |
| R/CCGGY | BsrFI-v2 |
| R/GATCY | BstYI |
| RGCGC/Y | HaeII |
| RG/CY | CviKI-1 |
| RG/GNCCY | EcoO109I |
| RG/GWCCY | PpuMI |
| TAACTATAACGGTCCTAAGGTAGCGAA(-9/-13) | I-CeuI |
| TAC/GTA | SnaBI |
| TAGGGATAACAGGGTAAT(-9/-13) | I-SceI |
| T/CATGA | BspHI |
| T/CCGGA | BspEI |
| TCCRAC(20/18) | MmeI |
| T/CGA | TaqI-v2 |
| TCG/CGA | NruI-HF® NruI |
| TCN/GA | Hpy188I |
| TC/NNGA | Hpy188III |
| T/CTAGA | XbaI |
| T/GATCA | BclI-HF BclI |
| TG/CA | HpyCH4V |
| TGC/GCA | FspI |
| TGGCAAACAGCTATTATGGGTATTATGGGT(-13/-17) | PI-PspI |
| TGG/CCA | MscI |
| T/GTACA | BsrGI-HF® BsrGI |
| T/TAA | MseI |
| TTAAT/TAA | PacI |
| TTA/TAA | PsiI-v2 |
| TT/CGAA | BstBI |
| TTT/AAA | DraI |
| VC/TCGAGB | PspXI |
| W/CCGGW | BsaWI |
| YAC/GTR | BsaAI |
| Y/GGCCR | EaeI |
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