|
Sequences at the top of each column are written 5´ to 3´ according to convention. Open squares at the left of each row are place holders for nucleotides within a restriction endonuclease recognition sequence; arrowheads indicate the point of cleavage. Sequences of complementary strands and their cleavage sites are implied.
blue type = enzymes that recognize only one sequence
black type = enzymes that recognize multiple sequences (degenerate)
Tetra- and Hexa-Nucleotide Recognition Sequences | Penta-Nucleotide
Recognition Sequences
Palindromic Tetra- and Hexa-Nucleotide Recognition Sequences PDF
of this table
| |
AATT |
ACGT |
AGCT |
ATAT |
CATG |
CCGG |
CGCG |
CTAG |
GATC |
GCGC |
GGCC |
GTAC |
TATA |
TCGA |
TGCA |
TTAA |
 |
MluCI |
|
|
|
FatI |
|
|
|
BfuCI
DpnII
MboI
Sau3AI
|
|
|
|
|
|
|
|
 |
|
HpyCH2IV |
|
|
CviAII |
MspI
HpaII |
|
BfaI |
|
HinP1I |
|
Csp6I
CviQI |
|
TaqI |
|
MseI |
 |
|
|
AluI
CviKI-1 |
|
|
|
BstUI |
|
DpnI |
|
HaeIII
PhoI
CviKI-1 |
RsaI |
|
|
HpyCH4V |
|
 |
|
|
|
|
|
|
|
|
BstKTII |
HhaI |
|
|
|
|
|
|
 |
|
TaiI |
|
|
NlaIII |
|
|
|
|
|
|
|
|
|
|
|
| |
AATT |
ACGT |
AGCT |
ATAT |
CATG |
CCGG |
CGCG |
CTAG |
GATC |
GCGC |
GGCC |
GTAC |
TATA |
TCGA |
TGCA |
TTAA |
| A T |
ApoI |
|
HindIII* |
|
PciI
AflIII |
AgeI*
BsrFI
BsaWI |
MluI
AflIII |
SpeI |
BglII
BstYII |
|
|
TatI |
|
|
|
|
| A T |
|
AclI |
|
|
|
|
|
|
|
|
|
|
|
ClaI
BspDI |
|
AseI |
| A T |
|
|
|
SspI* |
|
|
|
|
|
AfeI |
StuI |
ScaI* |
|
|
|
|
| A T |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| AT |
|
|
|
|
NspI |
|
|
|
|
HaeII |
|
|
|
|
NsiI
|
|
| |
AATT |
ACGT |
AGCT |
ATAT |
CATG |
CCGG |
CGCG |
CTAG |
GATC |
GCGC |
GGCC |
GTAC |
TATA |
TCGA |
TGCA |
TTAA |
| C G |
MfeI* |
|
|
|
NcoI*
StyI*
BtgI
BsaJI |
TspMI
XmaI
AcoI
AvaI
BsaJI
BsoBI |
BsaJI
BtgI |
AvrII
BsaJI
StyI* |
|
|
EagI*
EaeI |
BsiWI |
SfcI |
PaeR7I
TliI
XhoI
AvaI
BsoBI
SmlI |
SfcI |
AflII
SmlI |
| C G |
|
|
|
NdeI |
|
BmeT110I |
|
|
|
|
|
|
|
BmeT110I |
|
|
| C G |
|
PmlI
BsaAI |
PvuII*
MspA1I |
|
|
SmaI |
MspA1I |
|
|
|
|
|
|
|
|
|
| C G |
|
|
|
|
|
|
SacII |
|
PvuI*
BsiEI |
|
BsiEI |
|
|
|
|
|
| C G |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
PstI* |
|
| |
AATT |
ACGT |
AGCT |
ATAT |
CATG |
CCGG |
CGCG |
CTAG |
GATC |
GCGC |
GGCC |
GTAC |
TATA |
TCGA |
TGCA |
TTAA |
| G C |
EcoRI*
ApoI |
|
|
|
|
NgoMIV
BsrFI |
BssHII |
NheI* |
BamHI*
BstYI |
KasI
BanI |
PspOMI |
Acc65I
BanI |
|
SalI* |
ApaLI |
|
| G C |
|
BsaHI |
|
|
|
|
|
|
|
NarI
BsaHI |
|
|
AccI |
AccI |
|
|
| G C |
|
ZraI |
Ecl136II
Eco53KI
|
EcoRV* |
Cac8I |
NaeI
Cac8I |
Cac8I |
Cac8I |
NlaIV |
SfoI
NlaIV |
NlaIV |
NlaIV |
BstZ17I
Hpy8I
Hpy166II
|
HincII
Hpy8I
Hpy166II |
Hpy8I
Hpy166II |
HpaI
HincII
Hpy8I
Hpy166II |
| G C |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| G C |
|
AatII |
SacI*
BanII
BsiHKAI
Bsp1286I |
|
SphI*
NspI |
|
|
BmtI |
|
BbeI
HaeII |
ApaI
BanII
BaeGI
Bsp1286I |
KpnI* |
|
|
BaeGI
Bsp1286I
BsiHKAI |
|
| |
AATT |
ACGT |
AGCT |
ATAT |
CATG |
CCGG |
CGCG |
CTAG |
GATC |
GCGC |
GGCC |
GTAC |
TATA |
TCGA |
TGCA |
TTAA |
| T A |
|
|
|
|
BspHI |
BspEI
BsaWI
AcoI |
|
XbaI |
BclI |
|
EaeI |
BsrGI
TatI |
|
|
|
|
| T A |
|
|
|
|
Hpy188III |
Hpy188III |
Hpy188III |
Hpy188III |
|
|
|
|
|
BstBI |
|
|
| T A |
|
SnaBI
BsaAI |
|
|
|
|
NruI |
|
|
FspI |
MscI |
|
PsiI |
|
|
DraI |
| T A |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| TA |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
* HF (high fidelity) versions of these enzymes are available for simplified reactions and reduced star activity, at no additional cost.
Palindromic Penta-Nucleotide Recognition Sequences PDF
of this table top
| |
AA TT |
ACGT |
AGCT |
ATAT |
CATG |
CCGG |
CGCG |
CTAG |
GATC |
GCGC |
GGCC |
GTAC |
TATA |
TCGA |
TGCA |
TTAA |
 |
N |
 |
|
|
|
|
|
|
BssKI
StyD4I |
|
|
|
|
|
MaeIII |
|
|
|
|
 |
N |
|
|
|
|
|
|
|
|
|
DdeI |
HinfI |
|
Sau96I |
|
|
|
|
|
 |
N |
|
|
|
|
|
|
|
ScrFI |
|
|
|
Fnu4HI |
BmgT120I |
|
|
|
|
|
|
N |
|
|
|
HpyCH4II |
|
|
|
|
|
|
|
|
|
|
|
Hpy188I |
|
|
|
N |
|
|
|
|
|
|
|
|
|
|
|
|
FmuI |
|
|
|
|
|
|
N |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| |
AATT |
ACGT |
AGCT |
ATAT |
CATG |
CCGG |
CGCG |
CTAG |
GATC |
GCGC |
GGCC |
GTAC |
TATA |
TCGA |
TGCA |
TTAA |
| |
A |
|
| T |
|
|
|
|
|
|
PspGI |
|
|
|
|
|
|
|
|
|
|
|
A |
|
| T |
|
|
|
|
|
|
|
|
|
TfiI |
ApeKI
TseI |
AvaII |
|
|
|
|
|
|
A |
|
| T |
|
|
|
|
|
|
BstNI |
|
|
|
|
|
|
|
|
|
|
|
A |
|
| T |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
A |
|
| T |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
A |
|
| T |
|
|
|
|
|
|
|
Hpy99I |
|
|
|
|
|
|
|
|
|
| |
AATT |
ACGT |
AGCT |
ATAT |
CATG |
CCGG |
CGCG |
CTAG |
GATC |
GCGC |
GGCC |
GTAC |
TATA |
TCGA |
TGCA |
TTAA |
|
G |
|
| C |
|
|
|
|
|
|
|
|
|
|
|
|
Tsp45I |
|
|
|
|
|
G |
|
| C |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
G |
|
| C |
|
|
|
|
|
|
NciI |
|
|
|
|
|
|
|
|
|
|
|
G |
|
| C |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
G |
|
| C |
|
|
|
|
|
|
|
|
|
|
TauI
BspUI |
|
|
|
|
|
|
|
G |
|
| C |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
