RESTRICTION_ENZYMES: Common Restriction Enzyme's Cut Sites

Description Usage Format Source Examples

Description

A character vector of common restriction sites named by the restriction enzyme that cuts at each site. Sequence specificity is listed in 5' to 3' orientation based on the IUPAC_CODE_MAP. The cut site is either signified by a “/” for palindromic sites, or two numbers giving the position of the top and bottom cut positions relative to the site's 3'-end.

Usage

1

Format

The format is: Named chr [1:224] "GACGT/C" "G/GTACC" "GT/MKAC" ... - attr(*, "names")= chr [1:224] "AatII" "Acc65I" "AccI" "AciI" ...

Source

Restriction enzymes sold by New England BioLabs.

Examples

1
2

Example output

Loading required package: Biostrings
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:parallel':

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from 'package:stats':

    IQR, mad, sd, var, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, cbind, colMeans, colSums, colnames, do.call,
    duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
    lapply, lengths, mapply, match, mget, order, paste, pmax, pmax.int,
    pmin, pmin.int, rank, rbind, rowMeans, rowSums, rownames, sapply,
    setdiff, sort, table, tapply, union, unique, unsplit, which,
    which.max, which.min

Loading required package: S4Vectors
Loading required package: stats4

Attaching package: 'S4Vectors'

The following object is masked from 'package:base':

    expand.grid

Loading required package: IRanges
Loading required package: XVector

Attaching package: 'Biostrings'

The following object is masked from 'package:base':

    strsplit

Loading required package: RSQLite
             AatII             Acc65I               AccI               AciI 
         "GACGT/C"          "G/GTACC"          "GT/MKAC"      "CCGC(-3/-1)" 
              AclI               AcuI               AfeI              AflII 
         "AA/CGTT"    "CTGAAG(16/14)"          "AGC/GCT"          "C/TTAAG" 
            AflIII               AgeI               AhdI               AleI 
         "A/CRYGT"          "A/CCGGT"     "GACNNN/NNGTC"      "CACNN/NNGTG" 
              AluI               AlwI              AlwNI               ApaI 
           "AG/CT"       "GGATC(4/5)"       "CAGNNN/CTG"          "GGGCC/C" 
             ApaLI              ApeKI               ApoI               AscI 
         "G/TGCAC"           "G/CWGC"          "R/AATTY"        "GG/CGCGCC" 
              AseI              AsiSI               AvaI              AvaII 
         "AT/TAAT"        "GCGAT/CGC"          "C/YCGRG"           "G/GWCC" 
             AvrII              BaeGI              BamHI               BanI 
         "C/CTAGG"          "GKGCM/C"          "G/GATCC"          "G/GYRCC" 
             BanII               BbsI              BbvCI               BbvI 
         "GRGCY/C"      "GAAGAC(2/6)"   "CCTCAGC(-5/-2)"      "GCAGC(8/12)" 
              BccI              BceAI              BciVI               BclI 
      "CCATC(4/5)"     "ACGGC(12/14)"      "GTATCC(6/5)"          "T/GATCA" 
             BcoDI               BfaI              BfuAI              BfuCI 
      "GTCTC(1/5)"            "C/TAG"      "ACCTGC(4/8)"            "/GATC" 
              BglI              BglII               BlpI              BmgBI 
    "GCCNNNN/NGGC"          "A/GATCT"         "GC/TNAGC"    "CACGTC(-3/-3)" 
              BmrI               BmtI               BpmI             Bpu10I 
     "ACTGGG(5/4)"          "GCTAG/C"    "CTGGAG(16/14)"   "CCTNAGC(-5/-2)" 
             BpuEI              BsaAI              BsaBI              BsaHI 
   "CTTGAG(16/14)"          "YAC/GTR"      "GATNN/NNATC"          "GR/CGYC" 
              BsaI              BsaJI              BsaWI              BseRI 
     "GGTCTC(1/5)"          "C/CNNGG"          "W/CCGGW"     "GAGGAG(10/8)" 
             BseYI               BsgI              BsiEI            BsiHKAI 
   "CCCAGC(-5/-1)"    "GTGCAG(16/14)"          "CGRY/CG"          "GWGCW/C" 
             BsiWI               BslI              BsmBI              BsmFI 
         "C/GTACG"     "CCNNNNN/NNGG"      "CGTCTC(1/5)"     "GGGAC(10/14)" 
              BsmI           Bsp1286I             BspCNI              BspDI 
    "GAATGC(1/-1)"          "GDGCH/C"       "CTCAG(9/7)"          "AT/CGAT" 
             BspEI              BspHI              BspQI              BsrBI 
         "T/CCGGA"          "T/CATGA"     "GCTCTTC(1/4)"    "CCGCTC(-3/-3)" 
             BsrDI              BsrFI              BsrGI               BsrI 
     "GCAATG(2/0)"          "R/CCGGY"          "T/GTACA"      "ACTGG(1/-1)" 
            BssHII              BssKI              BssSI             BstAPI 
         "G/CGCGC"           "/CCNGG"    "CACGAG(-5/-1)"     "GCANNNN/NTGC" 
             BstBI             BstEII              BstNI              BstUI 
         "TT/CGAA"         "G/GTNACC"           "CC/WGG"            "CG/CG" 
             BstXI              BstYI            BstZ17I             Bsu36I 
   "CCANNNNN/NTGG"          "R/GATCY"          "GTA/TAC"         "CC/TNAGG" 
              BtgI              BtgZI              BtsCI               BtsI 
         "C/CRYGG"    "GCGATG(10/14)"       "GGATG(2/0)"      "GCAGTG(2/0)" 
          BtsIMutI              Cac8I             CviAII            CviKI-1 
      "CAGTG(2/0)"          "GCN/NGC"            "C/ATG"            "RG/CY" 
             CviQI               DdeI               DraI             DraIII 
           "G/TAC"           "C/TNAG"          "TTT/AAA"       "CACNNN/GTG" 
              DrdI               EaeI               EagI               EarI 
   "GACNNNN/NNGTC"          "Y/GGCCR"          "C/GGCCG"      "CTCTTC(1/4)" 
              EciI            Eco53kI              EcoNI           EcoO109I 
    "GGCGGA(11/9)"          "GAG/CTC"     "CCTNN/NNNAGG"         "RG/GNCCY" 
           EcoP15I              EcoRI              EcoRV               FatI 
   "CAGCAG(25/27)"          "G/AATTC"          "GAT/ATC"            "/CATG" 
              FauI             Fnu4HI               FokI               FseI 
      "CCCGC(4/6)"           "GC/NGC"      "GGATG(9/13)"        "GGCCGG/CC" 
              FspI              HaeII             HaeIII               HgaI 
         "TGC/GCA"          "RGCGC/Y"            "GG/CC"      "GACGC(5/10)" 
              HhaI             HincII            HindIII              HinfI 
           "GCG/C"          "GTY/RAC"          "A/AGCTT"           "G/ANTC" 
            HinP1I               HpaI               HphI           Hpy166II 
           "G/CGC"          "GTT/AAC"       "GGTGA(8/7)"          "GTN/NAC" 
           Hpy188I          Hpy188III             Hpy99I              HpyAV 
          "TCN/GA"          "TC/NNGA"           "CGWCG/"       "CCTTC(6/5)" 
         HpyCH4III           HpyCH4IV            HpyCH4V               KasI 
          "ACN/GT"            "A/CGT"            "TG/CA"          "G/GCGCC" 
              KpnI              MboII               MfeI              MluCI 
         "GGTAC/C"       "GAAGA(8/7)"          "C/AATTG"            "/AATT" 
              MluI               MlyI               MmeI               MnlI 
         "A/CGCGT"       "GAGTC(5/5)"    "TCCRAC(20/18)"        "CCTC(7/6)" 
              MscI               MseI               MslI             MspA1I 
         "TGG/CCA"            "T/TAA"      "CAYNN/NNRTG"          "CMG/CKG" 
              MwoI               NaeI               NarI               NciI 
    "GCNNNNN/NNGC"          "GCC/GGC"          "GG/CGCC"           "CC/SGG" 
              NcoI               NdeI             NgoMIV               NheI 
         "C/CATGG"          "CA/TATG"          "G/CCGGC"          "G/CTAGC" 
            NlaIII              NlaIV            NmeAIII               NotI 
           "CATG/"          "GGN/NCC"    "GCCGAG(21/19)"        "GC/GGCCGC" 
              NruI               NsiI               NspI          Nt.BstNBI 
         "TCG/CGA"          "ATGCA/T"          "RCATG/Y"      "GAGTC(4/-5)" 
              PacI             PaeR7I               PciI              PflFI 
       "TTAAT/TAA"          "C/TCGAG"          "A/CATGT"       "GACN/NNGTC" 
             PflMI              PluTI               PmeI               PmlI 
    "CCANNNN/NTGG"          "GGCGC/C"        "GTTT/AAAC"          "CAC/GTG" 
             PpuMI              PshAI               PsiI              PspGI 
        "RG/GWCCY"      "GACNN/NNGTC"          "TTA/TAA"           "/CCWGG" 
            PspOMI              PspXI               PstI               PvuI 
         "G/GGCCC"        "VC/TCGAGB"          "CTGCA/G"          "CGAT/CG" 
             PvuII               RsaI              RsrII               SacI 
         "CAG/CTG"            "GT/AC"         "CG/GWCCG"          "GAGCT/C" 
             SacII               SalI             Sau96I               SbfI 
         "CCGC/GG"          "G/TCGAC"           "G/GNCC"        "CCTGCA/GG" 
              ScaI              ScrFI              SexAI              SfaNI 
         "AGT/ACT"           "CC/NGG"         "A/CCWGGT"       "GCATC(5/9)" 
              SfcI               SfiI               SfoI              SgrAI 
         "C/TRYAG"   "GGCCNNNN/NGGCC"          "GGC/GCC"        "CR/CCGGYG" 
              SmaI               SmlI              SnaBI               SpeI 
         "CCC/GGG"          "C/TYRAG"          "TAC/GTA"          "A/CTAGT" 
              SphI               SspI               StuI               StyI 
         "GCATG/C"          "AAT/ATT"          "AGG/CCT"          "C/CWWGG" 
              SwaI              TaqaI               TfiI             Tsp45I 
       "ATTT/AAAT"            "T/CGA"           "G/AWTC"           "/GTSAC" 
             TspMI              TspRI               XbaI               XcmI 
         "C/CCGGG"       "NNCASTGNN/"          "T/CTAGA" "CCANNNNN/NNNNTGG" 
              XmnI               ZraI 
     "GAANN/NNTTC"          "GAC/GTC" 

DECIPHER documentation built on May 10, 2018, 6 p.m.