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Frequencies of Restriction Sites

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 | K | L | M | N | P | R | S | T | X | Z |

Enzyme Sequence Adeno-2 LITMUS
28i
pBR
322
pGLuc-
Basic
pMAL-
p5X
pTXB1 pUC19
Lambda M13
mp18
pGLuc-
Basic2
pKLAC2 pSNAPf pTYB
21
T7
AatIIGACGTC310101110051011
Acc65IGGTACC82110110020115
AccIGTMKAC1790123351253133
AciICCGC58251627426766648180751029234199
AclIAACGTT3732422253129219
AcuICTGAAG2340202948452221
AfeIAGCGCT132014000201200
AflIICTTAAG430000000000019
AflIIIACRYGT25201315142534123
AgeIACCGGT513100001011002
AgeI-HF™ACCGGT513100-010-1002
AhdIGACNNNNNGTC992011212122114
AleICACNNNNGTG1020010001010208
AluIAGCT1581431527173125382827303416140
AlwIGGATC35581031221201812201516101
AlwNICAGNNNCTG25411112252412115
ApaIGGGCCC121000000111100
ApaLIGTGCAC74203233644431
ApeKIGCWGC179199910212223272520272912116
ApoIRAATTY2958311033195357113
AscIGGCGCGCC22000000010000
AseIATTAAT31717144547104312
AsiSIGCGATCGC10000000000000
AvaICYCGRG408221232123114
AvaIIGGWCC73352184379668254
AvrIICCTAGG22100110010003
BaeGI <top>GKGCMC45102134588865316
BaeIACNNNNGTAYC510130101000103
BamHIGGATCC35111111111110
BamHI-HFGGATCC35111-111-1110
BanIGGYRCC572547976748812433
BanIIGRGCYC577222565253611
BbsIGAAGAC27240032133244038
BbvCICCTCAGC970200000000010
BbvIGCAGC179199910212223272520272912116
BccICCATC62145514925112216814253121
BceAIACGGC8011537375131181310247
BcgICGANNNNNNTGC10281031164146119
BciVIGTATCC9262024434344223
BclITGATCA58000212211201
BcoDIGTCTC603735393118489495
BfaICTAG541375512101931488460
BfuAIACCTGC39410315454423118
BfuCIGATC871161662238333523312429156
BglIGCCNNNNNGGC2029213113172322
BglIIAGATCT116110311120201
BlpIGCTNAGC860000001011020
BmgBICACGTC1517000101120008
BmrIACTGGG224215-325-11826
BmtIGCTAGC41001004011101
BpmICTGGAG32251246434156123
Bpu10ICCTNAGC23190410001202039
BpuEICTTGAG19134466675979456
BsaAIYACGTR22142514240324035
BsaBIGATNNNNATC221021422211307
BsaHIGRCGYC44402165565812738
BsaIGGTCTC1821011132222129
BsaI-HF™GGTCTC182101-132-22129
BsaJICCNNGG23410569816211810171515585
BsaWIWCCGGW28814654487586332
BsaXIACNNNNNCTCC29191404331123112
BseRIGAGGAG63190102120300013
BseYICCCAGC31321325534544129
BsgIGTGCAG34410011346354021
BsiEICGRYCG502243767118698517
BsiHKAIGWGCWC38284386889977524
BsiWICGTACG41100000101000
BslICCNNNNNNNGG2161768172021151816263125690
BsmAIGTCTC6037353-3118-810495
BsmBICGTCTC21141112022022216
BsmFIGGGAC59380249741546046
BsmIGAATGC10461114131510015
BsoBICYCGRG408221232123114
Bsp1286IGDGCHC10538551012151611151112540
BspCNICTCAG758042471081010920165142
BspDIATCGAT215021002000003
BspEITCCGGA824001001201100
BspHITCATGA382142221223313
BspMIACCTGC39410315454423118
BspQIGCTCTTC710001332131114
BsrBICCGCTC28173426764695317
BsrDIGCAATG14442324374444218
BsrFIRCCGGY40612176692611913
BsrGITGTACA550100010112013
BsrIACTGG861101119181714232619322811118
BssHIIGCGCGC526100111221101
BssKICCNGG23318591116282425272846291211
BssSICACGAG1182035453424331
BstAPIGCANNNNNTGC20340022232032112
BstBITTCGAA17100112000107
BstEIIGGTNACC1013000101101101
BstNICCWGG136715761914151419191452
BstUICGCG303157111723151726311941351065
BstXICCANNNNNNTGG10130002024143011
BstYIRGATCY2221828161412911101272
BstZ17IGTATAC33001113011108
Bsu36ICCTNAGG720101011100030
BtgICCRYGG82461222743614026
BtgZIGCGATG23452437646643024
BtsCIGGATG7815044121611201771218597
BtsIGCAGTG22342124575544320
BtsIMutICAGTG--------------
Cac8I <top>GCNNGC2852381228312933333241494214104
ClaIATCGAT215021002000003
CspCICAANNNNNGTGG67010001010009
CviAIICATG183181914262523382321233111148
CviKI-1RGCY68069246103731051011318611911212145562
CviQIGTAC831133193113157146113168
DdeI <top>CTNAG97104430811917111120196282
DpnIGATC871161662238333523312429156
DpnIIGATC871161662238333523312429156
DraITTTAAA1213253335163239
DraIIICACNNNGTG10101101120311016
DraIII-HF™CACNNNGTG1010110-120-11016
DrdIGACNNNNNNGTC632123352244211
EaeI <top>YGGCCR7039236810105154832
EagICGGCCG192001224122200
EagI-HFCGGCCG192001-241-2200
EarICTCTTC293422254116435346
EciIGGCGGA29323241096689832
Eco53kIGAGCTC162110112120110
EcoNICCTNNNNNAGG109001003002101
EcoO109IRGGNCCY4430041012513122
EcoP15ICAGCAG507234744710665336
EcoRIGAATTC55111111111110
EcoRI-HFGAATTC55111-111-1110
EcoRVGATATC921101111111300
EcoRV-HFGATATC921101-111-1300
FatI <top>CATG183181914262523382321233111148
FauICCCGC147905101010101417112822524
Fnu4HIGCNGC4113801617424646524247495219156
FokIGGATG7815044121611201771218597
FseIGGCCGGCC30000000000000
FspEICC--------------
FspITGCGCA1715214223221227
HaeII <top>RGCGCY7648461155693712326
HaeIIIGGCC216149121522212431233634361168
HgaIGACGC87102371156101272015470
HhaIGCGC375215192631-283639-414617103
HincIIGTYRAC25352123397476161
HindIIIAAGCTT126111111140210
HindIII-HF™AAGCTT126111-111-0210
HinfIGANTC721486261021153191116206218
HinP1IGCGC3752151926313128363927414617103
HpaIGTTAAC6141000031112018
HpaIICCGG171328121826242532252450351358
HphIGGTGA991689181211815191421207102
Hpy166IIGTNNAC11612510108141329201327245199
Hpy188ITCNGA801701031152420241917192810153
Hpy188IIITCNNGA1031851228193226322225272813173
Hpy99ICGWCG611025891212149131816529
HpyAVCCTTC8410671410161224141116206110
HpyCH4IIIACNGT12218773114221125201518228174
HpyCH4IVACGT83143132210151121101923225170
HpyCH4VTGCA2072731018213228392830262713116
KasI <top>GGCGCC201014111111412
KpnIGGTACC82110110020115
KpnI-HF™GGTACC82110-100-0115
LpnPI <top>CCDG--------------
MboI <top>GATC871161662238333523312429156
MboIIGAAGA113130101011181338151414188140
MfeICAATTG48000002121108
MfeI-HFCAATTG48000-021-1108
MluCIAATT87189862818154322193144779
MluIACGCGT57000000122101
MlyIGAGTC406168488175611104115
MmeITCCRAC25183345383544233
MnlICCTC3972621162263530562441353913342
MscITGGCCA1718011120120102
MseITTAA1151951563151816412423323913207
MslICAYNNNNRTG3562337751010679338
MspA1ICMGCKG957544698141181012635
MspICCGG171328121826242532252450351358
MspJICNNR--------------
MwoIGCNNNNNNNGC3913471319343338333042414313170
NaeI <top>GCCGGC131014333025500
NarIGGCGCC201014111111412
Nb.BbvCICCTCAGC97020-000-00010
Nb.BsmIGAATGC1046111-131-10015
Nb.BsrDIGCAATG1444232-374-44218
Nb.BtsIGCAGTG2234212-575-44320
NciICCSGG97114441091010139271579
NcoICCATGG204100241130101
NcoI-HFCCATGG204100-411-0101
NdeICATATG27031001111117
NgoMIVGCCGGC131014333025500
NheIGCTAGC41001-040-1101
NheI-HFGCTAGC41001-040-1101
NlaIIICATG183181914262523382321233111148
NlaIVGGNNCC17882131824251822142022301199
NmeAIIIGCCGAG1781033423224114
NotIGCGGCCGC70000111111100
NotI-HFGCGGCCGC70000-111-1100
NruITCGCGA55001011011003
NsiIATGCAT914100336010008
NspIRCATGY41321647693555324
Nt.AlwIGGATC355810312-201812-1516101
Nt.BbvCICCTCAGC97020-000-00010
Nt.BsmAIGTCTC6037353-3118-810495
Nt.BspQIGCTCTTC710001-321-1114
Nt.BstNBIGAGTC406168488175611104115
Nt.CviPIICCD414846412615704575955118065706097167292513575
PacI <top>TTAATTAA10010000010001
PaeR7ICTCGAG61100121011000
PciIACATGT92131213121116
PflFIGACNNNGTC122001211111201
PflMICCANNNNNTGG1814002303152208
PhoIGGCC216149121522212431233634361168
PleIGAGTC406168488175611104115
PmeIGTTTAAAC12000000011002
PmlICACGTG103000100010101
PpuMIRGGWCCY2330021012100012
PshAIGACNNNNGTC27001101001206
PsiITTATAA412120222111105
PspGICCWGG136715761914151419191452
PspOMIGGGCCC121000000111100
PspXIVCTCGAGB31000120011000
PstICTGCAG3028111223141110
PstI-HF™CTGCAG3028111-231-1110
PvuICGATCG73211123211220
PvuI-HF™CGATCG73211-232-1220
PvuIICAGCTG2415131533333423
PvuII-HFCAGCTG2415131-333-3423
RsaI <top>GTAC831133193113157146113168
RsrIICGGWCCG25000110110001
SacI <top>GAGCTC1621101212120110
SacI-HFGAGCTC162110-121-0110
SacIICCGCGG334000012011100
SalIGTCGAC32011131114110
SalI-HFGTCGAC32011-311-4110
SapIGCTCTTC710001332131114
Sau3AIGATC871161662238333523312429156
Sau96IGGNCC164746415781420212624679
SbfICCTGCAGG35110001110110
SbfI-HFCCTGCAGG35110-011-0110
ScaIAGTACT55101112121214
ScaI-HFAGTACT55101-121-1214
ScrFICCNGG23318591116282425272846291211
SexAIACCWGGT95000213000000
SfaNIGCATC85169572220191820172319896
SfcICTRYAG473877496941068448
SfiIGGCCNNNNNGGCC30000000010001
SfoIGGCGCC201014111111412
SgrAICRCCGGYG66001000001100
SmaICCCGGG123010111010010
SmlICTYRAG291754678851089475
SnaBITACGTA011100010100013
SpeIACTAGT30000000011102
SphIGCATGC86011452022110
SphI-HFGCATGC86011-520-2110
SspIAATATT520361116213516
SspI-HFAATATT520361-162-3516
StuIAGGCCT116100111001101
StyD4ICCNGG23318591116282425272846291211
StyICCWWGG44102015541424036
StyI-HF™CCWWGG4410201-541-24036
SwaIATTTAAAT10110000011101
TaqαI <top>TCGA501215127171732161522174111
TfiIGAWTC3287018613714455102103
TliICTCGAG61100121011000
TseIGCWGC179199910212223272520272912116
Tsp45IGTSAC73816998697512134108
Tsp509IAATT871898628-154322-3133779
TspMICCCGGG123010111010010
TspRICASTG831197911151222141616151094
Tth111IGACNNNGTC122001211111201
XbaI <top>TCTAGA51110111011113
XcmICCANNNNNNNNNTGG1412000101303408
XhoICTCGAG61100121011000
XmaICCCGGG123010111010010
XmnIGAANNNNTTC5240223431372112
ZraI <top>GACGTC310101110051011