Nucleotide Symbols Used:
======================================================================
R = A or G M = A or C H = A, C or T N = A, C, G or T
Y = C or T K = G or T V = A, C or G
S = C or G B = C, G or T
W = A or T D = A, G or T
======================================================================
I)Restriction Endonucleases listed Alphabetically by name 
Note: Position of cleavage indicated by / or (number).
ie: (3)ACGT == /NNNACGT.
ie ACGT(5) == ACGTNNNNN/
A B C D E F G H I J K L M N O P Q R S T U V W X Y Z
Enzyme DNA
Name Target
======= =====================
AatI AGG/CCT
AatII GACGT/C
AccI GT/MKAC
AccIII T/CCGGA
Acc65I G/GTACC
AciI C/CGC and G/CGG
AcsI R/AATTY
AcyI GR/CGYC
AflI G/GWCC
AflII C/TTAAG
AflIII A/CRYGT
AgeI A/CCGGT
AhaII GR/CGYC
AhaIII TTT/AAA
AluI AG/CT
AlwI GGATC(4) and (5)GATCC
Alw44I G/TGCAC
AlwNI CAGNNN/CTG
AocI CC/TNAGG
AosI TGC/GCA
ApaI GGGCC/C
ApaLI G/TGCAC
ApoI R/AATTY
ApyI /CCWGG
AscI GG/CGCGCC
AseI AT/TAAT
AsnI AT/TAAT
AspI GACN/NNGTC
Asp700 GAANN/NNTTC
Asp718 G/GTACC
AspEI GACNNN/NNGTC
AspHI GWGCW/C
AsuII TT/CGAA
AvaI C/YCGRG
AvaII G/GWCC
AviII TGC/GCA
AvrII C/CTAGG
Enzyme DNA
Name Target
======= =================
BalI TGG/CCA
BamHI G/GATCC
BanI G/GYRCC
BanII GRGCY/C
BbrPI CAC/GTG
BbsI GAAGACNN/ and (6)GTCTTC
BbvI GCAGC(8) and (12)GCTGC
BcgI (10)CGANNNNNNTGC(12) and (10)GCANNNNNNTCG(12)
BclI T/GATCA
BfaI C/TAG
BfrI C/TTAAG
BglI GCCNNNN/NGGC
BglII A/GATCT
BinI C/CTAGG
BmyI GDGCH/C
BpmI CTGGAG(16) and (14)CTCCAG
BpuAI GAAGACNN/ and (6)GTCTTC
Bpu1102I GC/TNAGC
BsaI GGTCTCN/ and (5)GAGACC
BsaAI YAC/GTR
BsaBI GATNN/NNATC
BsaHI GR/CGYC
BsaJI C/CNNGG
BseAI T/CCGGA
BsePI G/CGCGC
BsgI GTGCAG(16) and (14)CTGCAC
BsiEI CGRY/CG
BsiWI C/GTACG
BsiYI CCNNNNN/NNGG
BslI CCNNNNN/NNGG
BsmI GAATGCN/ and /NGCATTC
BsmAI GTCTCN/ and (5)GAGAC
Bsp1286I GDGCH/C
Bsp1407I T/GTACA
BspDI AT/CGAT
BspEI T/CCGGA
BspHI T/CATGA
BspLU11I A/CATGT
BspMI ACCTGC(4) and (8)GCAGGT
BsrI ACTGGN/ and /NCCAGT
BsrFI R/CCGGY
BssGI CCANNNNN/NTGG
BssHII G/CGCGC
Bst1107I GTA/TAC
BstBI TT/CGAA
BstEII G/GTNACC
BstNI CC/WGG
BstUI CG/CG
BstXI CCANNNNN/NTGG
BstYI R/GATCY
Bsu36I CC/TNAGG
Enzyme DNA
Name Target
======= ====================
CelII GC/TNAGC
CfoI GCG/C
CfrI Y/GGCCR
Cfr10I R/CCGGY
ClaI AT/CGAT
Enzyme DNA
Name Target
======= ====================
DdeI C/TNAG
DpnI GA/TC (only if G methylated)
DpnII /GATC
DraI TTT/AAA
DraII RG/GNCCY
DraIII CACNNN/GTG
DrdI GACNNNN/NNGTC
DsaI C/CRYGG
Enzyme DNA
Name Target
======= ====================
EaeI Y/GGCCR
EagI C/GGCCG
Eam1105I GACNNN/NNGTC
EarI CTCTTCN/ and (4)GAAGAG
Ecl136II GAG/CTC
EclXI C/GGCCG
Eco47III AGC/GCT
Eco57I CTGAAG(16) and (14)CTTCAG
EcoNI CCTNN/NNNAGG
EcoO109I RG/GNCCY
EcoRI G/AATTC
EcoRII /CCWGG
EcoRV GAT/ATC
EspI GC/TNAGC
Esp3I CGTCTCN/ and (5)GAGACG
Enzyme DNA
Name Target
======= ====================
FnuDII CG/CG
Fnu4HI GC/NGC
FokI GGATG(9) and (13)CATCC
FseI GGCCGG/CC
FspI TGC/GCA
GsuI CTGGAG(16) and (14)CTCCAG
Enzyme DNA
Name Target
======= ================
HaeII RGCGC/Y
HaeIII GG/CC
HgaI GACGC(5) and (10)GCGTC
HgiAI GWGCW/C
HhaI GCG/C
HincII GTY/RAC
HindII GTY/RAC
HindIII A/AGCTT
HinfI G/ANTC
HinPI G/CGC
HpaI GTT/AAC
HpaII C/CGG
HphI GGTGA(8) and (7)TCACC
Enzyme DNA
Name Target
======= ================
ItaI GC/NGC
KasI G/GCGCC
KpnI GGTAC/C
KspI CCGC/GG
Enzyme DNA
Name Target
======= ===============
MaeI C/TAG
MaeII A/CGT
MaeIII /GTNAC
MamI GATNN/NNATC
MboI /GATC
MboII GAAGA(8) and (7)TCTTC
MfeI C/AATTG
MluI A/CGCGT
MluNI TGG/CCA
MnlI CCTC(7) and (6)GAGG
MroI T/CCGGA
MscI TGG/CCA
MseI T/TAA
MspI C/CGG
MstI TGC/GCA
MstII CC/TNAGG
MunI C/AATTG
MvaI CC/WGG
MvnI CG/CG
Enzyme DNA
Name Target
======= ================
NaeI GCC/GGC
NarI GG/CGCC
NciI CC/SGG
NcoI C/CATGG
NdeI CA/TATG
NdeII /GATC
NgoMI G/CCGGC
NheI G/CTAGC
NlaIII CATG/
NlaIV GGN/NCC
NotI GC/GGCCGC
NruI TCG/CGA
NsiI ATGCA/T
NspBII CMG/CKG
NspI RCATG/Y
NspII GDGCH/C
NspV TT/CGAA
Enzyme DNA
Name Target
======= ================
PacI TTAAT/TAA
PaeR7I C/TCGAG
PflMI CCANNNN/NTGG
PinAI A/CCGGT
PleI GAGTC(4) and (5)GACTC
PmaCI CAC/GTG
PmeI GTTT/AAAC
PmlI CAC/GTG
PpuMI RG/GWCCY
Psp1406I AA/CGTT
PstI CTGCA/G
PvuI CGAT/CG
PvuII CAG/CTG
Enzyme DNA
Name Target
======= ================
RcaI T/CATGA
RmaI C/TAG
RsaI GT/AC
RsrII CG/GWCCG
Enzyme DNA
Name Target
======= ================
SacI GAGCT/C
SacII CCGC/GG
SalI G/TCGAC
SauI CC/TNAGG
Sau3AI /GATC
Sau96I G/GNCC
ScaI AGT/ACT
ScrFI CC/NGG
SexAI A/CCWGGT
SfaNI GCATC(5) and (9)GATGC
SfcI C/TRYAG
SfiI GGCCNNNN/NGGCC
SfuI TT/CGAA
SgrAI CR/CCGGYG
SmaI CCC/GGG
SnaBI TAC/GTA
SnoI G/TGCAC
SpeI A/CTAGT
SphI GCATG/C
SrfI GCCC/GGGC
Sse8387I CCTGCA/GG
SspI AAT/ATT
SspBI T/GTACA
SstI GAGCT/C
SstII CCGC/GG
StuI AGG/CCT
StyI C/CWWGG
SwaI ATTT/AAAT
Enzyme DNA
Name Target
======= ================
TaqI T/CGA
TfiI G/AWTC
ThaI CG/CG
Tru9I T/TAA
Tth111I GACN/NNGTC
Van91I CCANNNN/NTGG
Enzyme DNA
Name Target
======= ======================
XbaI T/CTAGA
XcmI CCANNNNN/NNNNTGG
XhoI C/TCGAG
XhoII R/GATCY
XmaI C/CCGGG
XmaIII C/GGCCG
XmaCI C/CCGGG
XmnI GAANN/NNTTC
Note:Position of cleavage indicated by / or (number).
ie: (3)ACGT == /NNNACGT.
ie ACGT(5) == ACGTNNNNN/
II) Restriction Endonucleases Arranged by Target Sequence
Target sequences are grouped by first 2 characters:
AA AC AG AT
CA CC CG CT
GA GC GG GT
TA TC TG TT
Note: Numbers in parentheses indicate position of cleavage. The first
number refers to the strand containing the motif cited; the second refers
to the complementary strand. Thus ACNGA(1,5) indicates: ACNGAN/
TGNCTNNNNN/
AA
Sequence cut Enzyme Name notes
================================================================
R/AATTY AcsI
R/AATTY ApoI
A/AGCTT HindIII
AA/CGTT Psp1406I
AAT/ATT SspI
AC
Sequence cut Enzyme Name notes
================================================================
A/CRYGT AflIII
A/CCGGT AgeI
A/CATGT BspLU11I
ACCTGC(4,8) BspMI
ACTGG(1,-1) BsrI
R/CCGGY BsrFI
R/CCGGY Cfr10I
A/CGT MaeII
A/CGCGT MluI
RCATG/Y NspI
A/CCGGT PinAI
A/CCWGGT SexAI
A/CTAGT SpeI
AG
Sequence cut Enzyme Name notes
================================================================
AGG/CCT AatI
AG/CT AluI
A/GATCT BglII
R/GATCY BstYI
RG/GNCCY DraII
AGC/GCT Eco47III
RG/GNCCY EcoO109I
RGCGC/Y HaeII
RG/GWCCY PpuMI
AGT/ACT ScaI
AGG/CCT StuI
R/GATCY XhoII
AT
Sequence cut Enzyme Name notes
================================================================
AT/TAAT AseI
AT/TAAT AsnI
AT/CGAT BspDI
AT/CGAT ClaI
ATGCA/T NsiI
ATTT/AAAT SwaI
CA
Sequence cut Enzyme Name notes
================================================================
CAGNNN/CTG AlwNI
CAC/GTG BbrPI
CACNNN/GTG DraIII
YAC/GTR BsaAI
C/AATTG MfeI
C/AATTG MunI
CA/TATG NdeI
CATG/ NlaIII
CMG/CKG NspBII
CAC/GTG PmaCI
CAC/GTG PmlI
CAG/CTG PvuII
CR/CCGGYG SgrAI
(13,9)CATCC FokI
CC
Sequence cut Enzyme Name notes
================================================================
C/CGC AciI
CC/TNAGG AocI
/CCWGG ApyI
C/CTAGG AvrII
C/CTAGG BinI
C/CNNGG BsaJI
CCNNNNN/NNGG BsiYI
CCNNNNN/NNGG BslI
CCANNNNN/NTGG BssGI
CC/WGG BstNI
CCANNNNN/NTGG BstXI
CC/TNAGG Bsu36I
C/CRYGG DsaI
C/YCGRG AvaI
CCTNN/NNNAGG EcoNI
/CCWGG EcoRII
C/CGG HpaII
CCGC/GG KspI
CCTC(7,6) MnlI
C/CGG MspI
CC/TNAGG MstII
CC/WGG MvaI
CC/SGG NciI
C/CATGG NcoI
CMG/CKG NspBII
CCANNNN/NTGG PflMI
CCGC/GG SacII
CC/TNAGG SauI
CC/NGG ScrFI
CCC/GGG SmaI
CCTGCA/GG Sse8387I
CCGC/GG SstII
C/CWWGG StyI
CCANNNN/NTGG Van91I
CCANNNNN/NNNNTGG XcmI
C/CCGGG XmaI
C/CCGGG XmaCI
(1,-1)CCAGT BsrI
CG
Sequence cut Enzyme Name notes
================================================================
(10,12)CGANNNNNNTGC(12,10) BcgI
CGRY/CG BsiEI
C/GTACG BsiWI
CG/CG BstUI
C/GGCCG EagI
Y/GGCCR CfrI
Y/GGCCR EaeI
C/GGCCG EclXI
CGTCTC(1,5) Esp3I
CG/CG FnuDII
CG/CG MvnI
CGAT/CG PvuI
CG/GWCCG RsrII
CR/CCGGYG SgrAI
CG/CG ThaI
C/GGCCG XmaIII
CT
Sequence cut Enzyme Name notes
================================================================
C/TTAAG AflII
C/TAG BfaI
C/TTAAG BfrI
CTGGAG(16,14) BpmI
C/TNAG DdeI
CTCTTC(1,4) EarI
C/YCGRG AvaI
CTGAAG(16,14) Eco57I
CTGGAG(16,14) GsuI
C/TAG MaeI
C/TCGAG PaeR7I
CTGCA/G PstI
C/TAG RmaI
C/TRYAG SfcI
C/TCGAG XhoI
(14,16)CTCCAG BpmI
(14,16)CTGCAC BsgI
(14,16)CTTCAG Eco57I
(14,16)CTCCAG GsuI
GA
Sequence cut Enzyme Name notes
================================================================
GACGT/C AatII
GACN/NNGTC AspI
GAANN/NNTTC Asp700
GACNNN/NNGTC AspEI
GAAGAC(2,6) BbsI
GAAGAC(2,6) BpuAI
GATNN/NNATC BsaBI
GAATGC(1,-1) BsmI
GA/TC DpnI only if G-Me
/GATC DpnII
GACNNNN/NNGTC DrdI
GACNNN/NNGTC Eam1105I
GAG/CTC Ecl136II
R/AATTY AcsI
GR/CGYC AcyI
GR/CGYC AhaII
R/AATTY ApoI
GWGCW/C AspHI
GRGCY/C BanII
GDGCH/C BmyI
GR/CGYC BsaHI
GDGCH/C Bsp1286I
G/AATTC EcoRI
GAT/ATC EcoRV
GACGC(5,10) HgaI
GWGCW/C HgiAI
G/ANTC HinfI
GATNN/NNATC MamI
/GATC MboI
GAAGA(8,7) MboII
/GATC NdeII
GDGCH/C NspII
GAGTC(4,5) PleI
GAGCT/C SacI
/GATC Sau3AI
GAGCT/C SstI
G/AWTC TfiI
GACN/NNGTC Tth111I
GAANN/NNTTC XmnI
(9,5)GATGC SfaNI
(5,4)GATCC AlwI
(5,1)GAGACC BsaI
(5,1)GAGAC BsmAI
(4,1)GAAGAG EarI
(5,1)GAGACG Esp3I
(6,7)GAGG MnlI
(5,4)GACTC PleI
GC
Sequence cut Enzyme Name notes
================================================================
GCAGC(8,12) BbvI
GCCNNNN/NGGC BglI
GC/TNAGC Bpu1102I
G/CGCGC BsePI
G/CGCGC BssHII
GC/TNAGC CelII
GCG/C CfoI
R/CCGGY BsrFI
R/CCGGY Cfr10I
GC/TNAGC EspI
GC/NGC Fnu4HI
GCG/C HhaI
G/CGC HinPI
GC/NGC ItaI
GCC/GGC NaeI
G/CCGGC NgoMI
G/CTAGC NheI
GC/GGCCGC NotI
RCATG/Y NspI
GCATC(5,9) SfaNI
GCATG/C SphI
GCCC/GGGC SrfI
G/CGG AciI
(12,8)GCTGC BbvI
(10,12)GCANNNNNNTCG(12,10) BcgI
(1,1)GCATTC BsmI
(8,4)GCAGGT BspMI
(10,5)GCGTC HgaI
GG
Sequence cut Enzyme Name notes
================================================================
G/GTACC Acc65I
G/GWCC AflI
GGATC(4,5) AlwI
GGGCC/C ApaI
GG/CGCGCC AscI
G/GTACC Asp718
G/GWCC AvaII
G/GATCC BamHI
G/GYRCC BanI
GGTCTC(1,5) BsaI
G/GTNACC BstEII
R/GATCY BstYI
GR/CGYC AcyI
GR/CGYC AhaII
GRGCY/C BanII
GDGCH/C BmyI
GR/CGYC BsaHI
GDGCH/C Bsp1286I
RG/GNCCY DraII
RG/GNCCY EcoO109I
GGATG(9,13) FokI
GGCCGG/CC FseI
RGCGC/Y HaeII
GG/CC HaeIII
GGTGA(8,7) HphI
G/GCGCC KasI
GGTAC/C KpnI
GG/CGCC NarI
GGN/NCC NlaIV
GDGCH/C NspII
RG/GWCCY PpuMI
G/GNCC Sau96I
GGCCNNNN/NGGCC SfiI
R/GATCY XhoII
GT
Sequence cut Enzyme Name notes
================================================================
GT/MKAC AccI
G/TGCAC Alw44I
G/TGCAC ApaLI
GTGCAG(16,14) BsgI
GTCTC(1,5) BsmAI
GTA/TAC Bst1107I
GWGCW/C AspHI
GDGCH/C BmyI
GDGCH/C Bsp1286I
GWGCW/C HgiAI
GTY/RAC HincII
GTY/RAC HindII
GTT/AAC HpaI
/GTNAC MaeIII
GDGCH/C NspII
GTTT/AAAC PmeI
GT/AC RsaI
G/TCGAC SalI
G/TGCAC SnoI
(6,2)GTCTTC BbsI
(6,2)GTCTTC BpuAI
TA
Sequence cut Enzyme Name notes
================================================================
YAC/GTR BsaAI
TAC/GTA SnaBI
TC
Sequence cut Enzyme Name notes
================================================================
T/CCGGA AccII
T/CCGGA BseAI
T/CCGGA BspEI
T/CATGA BspHI
T/CCGGA MroI
TCG/CGA NruI
T/CATGA RcaI
T/CGA TaqI
T/CTAGA XbaI
(7,8)TCACC HphI
(7,8)TCTTC MboII
TG
Sequence cut Enzyme Name notes
================================================================
TGC/GCA AosI
TGC/GCA AviII
TGG/CCA BalI
T/GATCA BclI
T/GTACA Bsp1407I
Y/GGCCR CfrI
Y/GGCCR EaeI
TGC/GCA FspI
TGG/CCA MluNI
TGG/CCA MscI
TGC/GCA MstI
T/GTACA SspBI
TT
Sequence cut Enzyme Name notes
================================================================
TTT/AAA AhaIII
TT/CGAA AsuII
TT/CGAA BstBI
TTT/AAA DraI
T/TAA MseI
TT/CGAA NspV
TTAAT/TAA PacI
TT/CGAA SfuI
T/TAA Tru9I
Numbers in parentheses indicate position of cleavage. The first number
refers to the strand containing the motif cited; the second refers to
the complementary strand. Thus ACNGA(1,5) indicates: ACNGAN/
TGNCTNNNNN/
data compiled by Bruce Williams
Please direct corrections, complaints, suggestions, etc to:
bawill@molecularworkshop.com
last modified 23/8.05
links:
New England BioLabs (USA)
New England BioLabs (UK)
Roche Molecular Biochemicals
Fragmenter:
Programs dealing with digested DNA.
Buffers