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1475 lines (1473 loc) · 20.3 KB
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import { Enzyme } from "./elements";
/**
* NEB Restriction Enzymes
*
* a list of enzyme objects with their name as the key,
* their recognition site sequence as "rseq", and cut site relative to the
* start of the recognition site as "fcut", and the start of the resulting overhang
* from the recognition site as "rcut"
*
* eg: PstI with recognition site "CTGCAG" cuts so that the break is at (cutSite = 5):
*
* ```
* ..C TGCA|G..
* ..G|ACGT C..
*
* ```
*
* and the resulting fragment looks like (rcut = 1):
*
* ```
* ..CTGCA
* ..G****
* ```
*/
const enzymes: { [key: string]: Enzyme } = {
aatii: {
fcut: 5,
name: "AatII",
rcut: 1,
rseq: "GACGTC",
},
abasi: {
fcut: 14,
name: "AbaSI",
rcut: 12,
rseq: "hmCNNNNNNNNNNN",
},
acc65i: {
fcut: 1,
name: "Acc65I",
rcut: 5,
rseq: "GGTACC",
},
acci: {
fcut: 2,
name: "AccI",
rcut: 4,
rseq: "GTMKAC",
},
acii: {
fcut: 1,
name: "AciI",
rcut: 3,
rseq: "CCGC",
},
acli: {
fcut: 2,
name: "AclI",
rcut: 4,
rseq: "AACGTT",
},
acui: {
fcut: 22,
name: "AcuI",
rcut: 20,
rseq: "CTGAAGNNNNNNNNNNNNNNNN",
},
afei: {
fcut: 3,
name: "AfeI",
rcut: 3,
rseq: "AGCGCT",
},
aflii: {
fcut: 1,
name: "AflII",
rcut: 5,
rseq: "CTTAAG",
},
afliii: {
fcut: 1,
name: "AflIII",
rcut: 5,
rseq: "ACRYGT",
},
agei: {
fcut: 1,
name: "AgeI",
rcut: 5,
rseq: "ACCGGT",
},
ahdi: {
fcut: 6,
name: "AhdI",
rcut: 5,
rseq: "GACNNNNNGTC",
},
alei: {
fcut: 5,
name: "AleI",
rcut: 5,
rseq: "CACNNNNGTG",
},
alui: {
fcut: 2,
name: "AluI",
rcut: 2,
rseq: "AGCT",
},
alwi: {
fcut: 9,
name: "AlwI",
rcut: 10,
rseq: "GGATCNNNNN",
},
alwni: {
fcut: 6,
name: "AlwNI",
rcut: 3,
rseq: "CAGNNNCTG",
},
apai: {
fcut: 5,
name: "ApaI",
rcut: 1,
rseq: "GGGCCC",
},
apali: {
fcut: 1,
name: "ApaLI",
rcut: 5,
rseq: "GTGCAC",
},
apeki: {
fcut: 1,
name: "ApeKI",
rcut: 4,
rseq: "GCWGC",
},
apoi: {
fcut: 1,
name: "ApoI",
rcut: 5,
rseq: "RAATTY",
},
asci: {
fcut: 2,
name: "AscI",
rcut: 6,
rseq: "GGCGCGCC",
},
asei: {
fcut: 2,
name: "AseI",
rcut: 4,
rseq: "ATTAAT",
},
asisi: {
fcut: 5,
name: "AsiSI",
rcut: 3,
rseq: "GCGATCGC",
},
avai: {
fcut: 1,
name: "AvaI",
rcut: 5,
rseq: "CYCGRG",
},
avaii: {
fcut: 1,
name: "AvaII",
rcut: 4,
rseq: "GGWCC",
},
avrii: {
fcut: 1,
name: "AvrII",
rcut: 5,
rseq: "CCTAGG",
},
baegi: {
fcut: 5,
name: "BaeGI",
rcut: 1,
rseq: "GKGCMC",
},
baei: {
fcut: 38,
name: "BaeI",
rcut: 33,
rseq: "NNNNNNNNNNNNNNNACNNNNGTAYCNNNNNNNNNNNN",
},
bamhi: {
fcut: 1,
name: "BamHI",
rcut: 5,
rseq: "GGATCC",
},
bani: {
fcut: 1,
name: "BanI",
rcut: 5,
rseq: "GGYRCC",
},
banii: {
fcut: 5,
name: "BanII",
rcut: 1,
rseq: "GRGCYC",
},
bbsi: {
fcut: 8,
name: "BbsI",
rcut: 12,
rseq: "GAAGACNNNNNN",
},
bbvci: {
fcut: 2,
name: "BbvCI",
rcut: 5,
rseq: "CCTCAGC",
},
bbvi: {
fcut: 13,
name: "BbvI",
rcut: 17,
rseq: "GCAGCNNNNNNNNNNNN",
},
bcci: {
fcut: 9,
name: "BccI",
rcut: 10,
rseq: "CCATCNNNNN",
},
bceai: {
fcut: 17,
name: "BceAI",
rcut: 19,
rseq: "ACGGCNNNNNNNNNNNNNN",
},
bcgi: {
fcut: 36,
name: "BcgI",
rcut: 34,
rseq: "NNNNNNNNNNNNCGANNNNNNTGCNNNNNNNNNNNN",
},
bcivi: {
fcut: 12,
name: "BciVI",
rcut: 11,
rseq: "GTATCCNNNNNN",
},
bcli: {
fcut: 1,
name: "BclI",
rcut: 5,
rseq: "TGATCA",
},
bcodi: {
fcut: 6,
name: "BcoDI",
rcut: 10,
rseq: "GTCTCNNNNN",
},
bfai: {
fcut: 1,
name: "BfaI",
rcut: 3,
rseq: "CTAG",
},
bfuai: {
fcut: 10,
name: "BfuAI",
rcut: 14,
rseq: "ACCTGCNNNNNNNN",
},
bgli: {
fcut: 7,
name: "BglI",
rcut: 4,
rseq: "GCCNNNNNGGC",
},
bglii: {
fcut: 1,
name: "BglII",
rcut: 5,
rseq: "AGATCT",
},
blpi: {
fcut: 2,
name: "BlpI",
rcut: 5,
rseq: "GCTNAGC",
},
bmgbi: {
fcut: 3,
name: "BmgBI",
rcut: 3,
rseq: "CACGTC",
},
bmri: {
fcut: 11,
name: "BmrI",
rcut: 10,
rseq: "ACTGGGNNNNN",
},
bmti: {
fcut: 5,
name: "BmtI",
rcut: 1,
rseq: "GCTAGC",
},
bpmi: {
fcut: 22,
name: "BpmI",
rcut: 20,
rseq: "CTGGAGNNNNNNNNNNNNNNNN",
},
bpu10i: {
fcut: 2,
name: "Bpu10I",
rcut: 5,
rseq: "CCTNAGC",
},
bpuei: {
fcut: 22,
name: "BpuEI",
rcut: 20,
rseq: "CTTGAGNNNNNNNNNNNNNNNN",
},
bsaai: {
fcut: 3,
name: "BsaAI",
rcut: 3,
rseq: "YACGTR",
},
bsabi: {
fcut: 5,
name: "BsaBI",
rcut: 5,
rseq: "GATNNNNATC",
},
bsahi: {
fcut: 2,
name: "BsaHI",
rcut: 4,
rseq: "GRCGYC",
},
bsai: {
fcut: 7,
name: "BsaI",
rcut: 11,
rseq: "GGTCTCNNNNN",
},
bsaji: {
fcut: 1,
name: "BsaJI",
rcut: 5,
rseq: "CCNNGG",
},
bsawi: {
fcut: 1,
name: "BsaWI",
rcut: 5,
rseq: "WCCGGW",
},
bsaxi: {
fcut: 33,
name: "BsaXI",
rcut: 30,
rseq: "NNNNNNNNNNNNACNNNNNCTCCNNNNNNNNNN",
},
bseri: {
fcut: 16,
name: "BseRI",
rcut: 14,
rseq: "GAGGAGNNNNNNNNNN",
},
bseyi: {
fcut: 1,
name: "BseYI",
rcut: 5,
rseq: "CCCAGC",
},
bsgi: {
fcut: 22,
name: "BsgI",
rcut: 20,
rseq: "GTGCAGNNNNNNNNNNNNNNNN",
},
bsiei: {
fcut: 4,
name: "BsiEI",
rcut: 2,
rseq: "CGRYCG",
},
bsihkai: {
fcut: 5,
name: "BsiHKAI",
rcut: 1,
rseq: "GWGCWC",
},
bsiwi: {
fcut: 1,
name: "BsiWI",
rcut: 5,
rseq: "CGTACG",
},
bsli: {
fcut: 7,
name: "BslI",
rcut: 4,
rseq: "CCNNNNNNNGG",
},
bsmai: {
fcut: 6,
name: "BsmAI",
rcut: 10,
rseq: "GTCTCNNNNN",
},
bsmbi: {
fcut: 7,
name: "BsmBI",
rcut: 11,
rseq: "CGTCTCNNNNN",
},
bsmfi: {
fcut: 15,
name: "BsmFI",
rcut: 19,
rseq: "GGGACNNNNNNNNNNNNNN",
},
bsmi: {
fcut: 7,
name: "BsmI",
rcut: 5,
rseq: "GAATGCN",
},
bsobi: {
fcut: 1,
name: "BsoBI",
rcut: 5,
rseq: "CYCGRG",
},
bsp1286i: {
fcut: 5,
name: "Bsp1286I",
rcut: 1,
rseq: "GDGCHC",
},
bspcni: {
fcut: 14,
name: "BspCNI",
rcut: 12,
rseq: "CTCAGNNNNNNNNN",
},
bspdi: {
fcut: 2,
name: "BspDI",
rcut: 4,
rseq: "ATCGAT",
},
bspei: {
fcut: 1,
name: "BspEI",
rcut: 5,
rseq: "TCCGGA",
},
bsphi: {
fcut: 1,
name: "BspHI",
rcut: 5,
rseq: "TCATGA",
},
bspmi: {
fcut: 10,
name: "BspMI",
rcut: 14,
rseq: "ACCTGCNNNNNNNN",
},
bspqi: {
fcut: 8,
name: "BspQI",
rcut: 11,
rseq: "GCTCTTCNNNN",
},
bsrbi: {
fcut: 3,
name: "BsrBI",
rcut: 3,
rseq: "CCGCTC",
},
bsrdi: {
fcut: 8,
name: "BsrDI",
rcut: 6,
rseq: "GCAATGNN",
},
bsrfi: {
fcut: 1,
name: "BsrFI",
rcut: 5,
rseq: "RCCGGY",
},
bsrgi: {
fcut: 1,
name: "BsrGI",
rcut: 5,
rseq: "TGTACA",
},
bsri: {
fcut: 6,
name: "BsrI",
rcut: 4,
rseq: "ACTGGN",
},
bsshii: {
fcut: 1,
name: "BssHII",
rcut: 5,
rseq: "GCGCGC",
},
bsssi: {
fcut: 1,
name: "BssSI",
rcut: 5,
rseq: "CACGAG",
},
bstapi: {
fcut: 7,
name: "BstAPI",
rcut: 4,
rseq: "GCANNNNNTGC",
},
bstbi: {
fcut: 2,
name: "BstBI",
rcut: 4,
rseq: "TTCGAA",
},
bsteii: {
fcut: 1,
name: "BstEII",
rcut: 6,
rseq: "GGTNACC",
},
bstni: {
fcut: 2,
name: "BstNI",
rcut: 3,
rseq: "CCWGG",
},
bstui: {
fcut: 2,
name: "BstUI",
rcut: 2,
rseq: "CGCG",
},
bstxi: {
fcut: 8,
name: "BstXI",
rcut: 4,
rseq: "CCANNNNNNTGG",
},
bstyi: {
fcut: 1,
name: "BstYI",
rcut: 5,
rseq: "RGATCY",
},
bstz17i: {
fcut: 3,
name: "BstZ17I",
rcut: 3,
rseq: "GTATAC",
},
bsu36i: {
fcut: 2,
name: "Bsu36I",
rcut: 5,
rseq: "CCTNAGG",
},
btgi: {
fcut: 1,
name: "BtgI",
rcut: 5,
rseq: "CCRYGG",
},
btgzi: {
fcut: 16,
name: "BtgZI",
rcut: 20,
rseq: "GCGATGNNNNNNNNNNNNNN",
},
btsci: {
fcut: 7,
name: "BtsCI",
rcut: 5,
rseq: "GGATGNN",
},
btsi: {
fcut: 8,
name: "BtsI",
rcut: 6,
rseq: "GCAGTGNN",
},
btsimuti: {
fcut: 7,
name: "BtsIMutI",
rcut: 5,
rseq: "CAGTGNN",
},
cac8i: {
fcut: 3,
name: "Cac8I",
rcut: 3,
rseq: "GCNNGC",
},
clai: {
fcut: 2,
name: "ClaI",
rcut: 4,
rseq: "ATCGAT",
},
cspci: {
fcut: 37,
name: "CspCI",
rcut: 35,
rseq: "NNNNNNNNNNNNNCAANNNNNGTGGNNNNNNNNNNNN",
},
cviaii: {
fcut: 1,
name: "CviAII",
rcut: 3,
rseq: "CATG",
},
"cviki-1": {
fcut: 2,
name: "CviKI-1",
rcut: 2,
rseq: "RGCY",
},
cviqi: {
fcut: 1,
name: "CviQI",
rcut: 3,
rseq: "GTAC",
},
ddei: {
fcut: 1,
name: "DdeI",
rcut: 4,
rseq: "CTNAG",
},
dpni: {
fcut: 3,
name: "DpnI",
rcut: 3,
rseq: "GmATC",
},
dpnii: {
fcut: 0,
name: "DpnII",
rcut: 4,
rseq: "GATC",
},
drai: {
fcut: 3,
name: "DraI",
rcut: 3,
rseq: "TTTAAA",
},
draiii: {
fcut: 6,
name: "DraIII",
rcut: 3,
rseq: "CACNNNGTG",
},
drdi: {
fcut: 7,
name: "DrdI",
rcut: 5,
rseq: "GACNNNNNNGTC",
},
eaei: {
fcut: 1,
name: "EaeI",
rcut: 5,
rseq: "YGGCCR",
},
eagi: {
fcut: 1,
name: "EagI",
rcut: 5,
rseq: "CGGCCG",
},
eari: {
fcut: 7,
name: "EarI",
rcut: 10,
rseq: "CTCTTCNNNN",
},
ecii: {
fcut: 17,
name: "EciI",
rcut: 15,
rseq: "GGCGGANNNNNNNNNNN",
},
eco53ki: {
fcut: 3,
name: "Eco53kI",
rcut: 3,
rseq: "GAGCTC",
},
econi: {
fcut: 5,
name: "EcoNI",
rcut: 6,
rseq: "CCTNNNNNAGG",
},
ecoo109i: {
fcut: 2,
name: "EcoO109I",
rcut: 5,
rseq: "RGGNCCY",
},
ecori: {
fcut: 1,
name: "EcoRI",
rcut: 5,
rseq: "GAATTC",
},
ecorv: {
fcut: 3,
name: "EcoRV",
rcut: 3,
rseq: "GATATC",
},
esp3i: {
fcut: 7,
name: "Esp3I",
rcut: 11,
rseq: "CGTCTCNNNNN",
},
fati: {
fcut: 0,
name: "FatI",
rcut: 4,
rseq: "CATG",
},
faui: {
fcut: 9,
name: "FauI",
rcut: 11,
rseq: "CCCGCNNNNNN",
},
fnu4hi: {
fcut: 2,
name: "Fnu4HI",
rcut: 3,
rseq: "GCNGC",
},
foki: {
fcut: 14,
name: "FokI",
rcut: 18,
rseq: "GGATGNNNNNNNNNNNNN",
},
fsei: {
fcut: 6,
name: "FseI",
rcut: 2,
rseq: "GGCCGGCC",
},
fspei: {
fcut: 15,
name: "FspEI",
rcut: 19,
rseq: "CmCNNNNNNNNNNNNNNNN",
},
fspi: {
fcut: 3,
name: "FspI",
rcut: 3,
rseq: "TGCGCA",
},
haeii: {
fcut: 5,
name: "HaeII",
rcut: 1,
rseq: "RGCGCY",
},
haeiii: {
fcut: 2,
name: "HaeIII",
rcut: 2,
rseq: "GGCC",
},
hgai: {
fcut: 10,
name: "HgaI",
rcut: 15,
rseq: "GACGCNNNNNNNNNN",
},
hhai: {
fcut: 3,
name: "HhaI",
rcut: 1,
rseq: "GCGC",
},
hincii: {
fcut: 3,
name: "HincII",
rcut: 3,
rseq: "GTYRAC",
},
hindiii: {
fcut: 1,
name: "HindIII",
rcut: 5,
rseq: "AAGCTT",
},
hinfi: {
fcut: 1,
name: "HinfI",
rcut: 4,
rseq: "GANTC",
},
hinp1i: {
fcut: 1,
name: "HinP1I",
rcut: 3,
rseq: "GCGC",
},
hpai: {
fcut: 3,
name: "HpaI",
rcut: 3,
rseq: "GTTAAC",
},
hpaii: {
fcut: 1,
name: "HpaII",
rcut: 3,
rseq: "CCGG",
},
hphi: {
fcut: 13,
name: "HphI",
rcut: 12,
rseq: "GGTGANNNNNNNN",
},
hpy166ii: {
fcut: 3,
name: "Hpy166II",
rcut: 3,
rseq: "GTNNAC",
},
hpy188i: {
fcut: 3,
name: "Hpy188I",
rcut: 2,
rseq: "TCNGA",
},
hpy188iii: {
fcut: 2,
name: "Hpy188III",
rcut: 4,
rseq: "TCNNGA",
},
hpy99i: {
fcut: 5,
name: "Hpy99I",
rcut: 0,
rseq: "CGWCG",
},
hpyav: {
fcut: 11,
name: "HpyAV",
rcut: 10,
rseq: "CCTTCNNNNNN",
},
hpych4iii: {
fcut: 3,
name: "HpyCH4III",
rcut: 2,
rseq: "ACNGT",
},
hpych4iv: {
fcut: 1,
name: "HpyCH4IV",
rcut: 3,
rseq: "ACGT",
},
hpych4v: {
fcut: 2,
name: "HpyCH4V",
rcut: 2,
rseq: "TGCA",
},
"i-ceui": {
fcut: 18,
name: "I-CeuI",
rcut: 14,
rseq: "TAACTATAACGGTCCTAAGGTAGCGAA",
},
"i-scei": {
fcut: 9,
name: "I-SceI",
rcut: 5,
rseq: "TAGGGATAACAGGGTAAT",
},
kasi: {
fcut: 1,
name: "KasI",
rcut: 5,
rseq: "GGCGCC",
},
kpni: {
fcut: 5,
name: "KpnI",
rcut: 1,
rseq: "GGTACC",
},
lpnpi: {
fcut: 15,
name: "LpnPI",
rcut: 19,
rseq: "CmCDGNNNNNNNNNNNNNN",
},
mboi: {
fcut: 0,
name: "MboI",
rcut: 4,
rseq: "GATC",
},
mboii: {
fcut: 13,
name: "MboII",
rcut: 12,
rseq: "GAAGANNNNNNNN",
},
mfei: {
fcut: 1,
name: "MfeI",
rcut: 5,
rseq: "CAATTG",
},
mluci: {
fcut: 0,
name: "MluCI",
rcut: 4,
rseq: "AATT",
},
mlui: {
fcut: 1,
name: "MluI",
rcut: 5,
rseq: "ACGCGT",
},
mlyi: {
fcut: 10,
name: "MlyI",
rcut: 10,
rseq: "GAGTCNNNNN",
},
mmei: {
fcut: 26,
name: "MmeI",
rcut: 24,
rseq: "TCCRACNNNNNNNNNNNNNNNNNNNN",
},
mnli: {
fcut: 11,
name: "MnlI",
rcut: 10,
rseq: "CCTCNNNNNNN",
},
msci: {
fcut: 3,
name: "MscI",
rcut: 3,
rseq: "TGGCCA",
},
msei: {
fcut: 1,
name: "MseI",
rcut: 3,
rseq: "TTAA",
},
msli: {
fcut: 5,
name: "MslI",
rcut: 5,
rseq: "CAYNNNNRTG",
},
mspa1i: {
fcut: 3,