Plasmid Files

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AarI  (6082) 1 site

Efficient cleavage requires at least two copies of the AarI recognition sequence. Sticky ends from different AarI sites may not be compatible. After cleavage, AarI can remain bound to DNA and alter its electrophoretic mobility.

BfuAI  (6082) 1 site

Efficient cleavage requires at least two copies of the BfuAI recognition sequence. Sticky ends from different BfuAI sites may not be compatible. BfuAI is typically used at 50°C, but is 50% active at 37°C.

BspMI  (6082) 1 site

Efficient cleavage requires at least two copies of the BspMI recognition sequence. Sticky ends from different BspMI sites may not be compatible.

BsmBI  (5909) 1 site

Sticky ends from different BsmBI sites may not be compatible.

SpeI  (5896) 1 site

BstZ17I  (5577) 1 site

SacII  (5461) 1 site

Efficient cleavage requires at least two copies of the SacII recognition sequence.

PvuI  (5437) 1 site

Bsu36I  (5423) 1 site

Sticky ends from different Bsu36I sites may not be compatible.

BstEII  (4992) 1 site

Sticky ends from different BstEII sites may not be compatible. BstEII is typically used at 60°C, but is 50% active at 37°C.

BstXI  (4989) 1 site

Sticky ends from different BstXI sites may not be compatible.

PstI  (4989) 1 site

NotI  (4965) 1 site

AlwNI  (4561) 1 site

Sticky ends from different AlwNI sites may not be compatible.

ApaLI  (4459) 1 site

BciVI  (4348) 1 site

The 1-base overhangs produced by BciVI may be hard to ligate. Sticky ends from different BciVI sites may not be compatible.

PciI  (4145) 1 site

PciI is inhibited by nonionic detergents.

SalI  (3895) 1 site

BstBI  (3881) 1 site

PmeI  (3805) 1 site

BssHII  (3780) 1 site

BssHII is typically used at 50°C, but is 75% active at 37°C.

BglI  (8) 2 sites

Sticky ends from different BglI sites may not be compatible.

SfiI  (8) 2 sites

Efficient cleavage requires at least two copies of the SfiI recognition sequence. Sticky ends from different SfiI sites may not be compatible.

Acc65I  (14) 1 site

KpnI  (18) 1 site

Eco53kI  (23) 1 site

SacI  (25) 1 site

NheI  (27) 1 site

BmtI  (31) 1 site

BglII  (148) 1 site

BglI  (161) 2 sites

Sticky ends from different BglI sites may not be compatible.

SfiI  (161) 2 sites

Efficient cleavage requires at least two copies of the SfiI recognition sequence. Sticky ends from different SfiI sites may not be compatible.

HindIII  (167) 1 site

MreI  (306) 1 site

SgrAI  (306) 1 site

Efficient cleavage requires at least two copies of the SgrAI recognition sequence.

BsrGI  (733) 1 site

BsrGI is typically used at 37°C, but is even more active at 60°C.

BbvCI  (954) 1 site

KasI  (1190) 1 site

NarI  (1191) 1 site

Efficient cleavage requires at least two copies of the NarI recognition sequence.

SfoI  (1192) 1 site

PluTI  (1194) 1 site

Efficient cleavage requires at least two copies of the PluTI recognition sequence.

BlpI  (1197) 1 site

Sticky ends from different BlpI sites may not be compatible.

DraIII  (1389) 1 site

Sticky ends from different DraIII sites may not be compatible.

BpmI  (1623) 1 site

Efficient cleavage requires at least two copies of the BpmI recognition sequence. Sticky ends from different BpmI sites may not be compatible. After cleavage, BpmI can remain bound to DNA and alter its electrophoretic mobility. BpmI quickly loses activity at 37°C.

EcoRI  (1892) 1 site

FseI  (2047) 1 site

FseI gradually loses activity when stored at -20°C.

PsiI  (2168) 1 site

MfeI  (2197) 1 site

BamHI  (2290) 1 site

After cleavage, BamHI-HF™ (but not the original BamHI) can remain bound to DNA and alter its electrophoretic mobility.

StuI  (2723) 1 site

AvrII  (2724) 1 site

XmnI  (2807) 1 site

BsaAI  (2955) 1 site

RVprimer3 20-mer  /  50% GC 1 binding site 6061 .. 6080  =  20 annealed bases Tm  =  54°C

RVprimer4 20-mer  /  65% GC 1 binding site 3946 .. 3965  =  20 annealed bases Tm  =  61°C

luciferase 243 .. 1892  =  1650 bp 550 amino acids  =  60.6 kDa Product: firefly luciferase synthetic luc2 version of the luciferase gene

luciferase 243 .. 1892  =  1650 bp 550 amino acids  =  60.6 kDa Product: firefly luciferase synthetic luc2 version of the luciferase gene

HygR 2770 .. 3807  =  1038 bp 345 amino acids  =  38.4 kDa Product: hygromycin B phosphotransferase confers resistance to hygromycin

HygR 2770 .. 3807  =  1038 bp 345 amino acids  =  38.4 kDa Product: hygromycin B phosphotransferase confers resistance to hygromycin

AmpR 4994 .. 5854  =  861 bp 286 amino acids  =  31.6 kDa    Segment 2:      4994 .. 5785  =  792 bp    263 amino acids  =  28.9 kDa Product: β-lactamase confers resistance to ampicillin, carbenicillin, and related antibiotics

AmpR 4994 .. 5854  =  861 bp 286 amino acids  =  31.6 kDa    Segment 1:  signal sequence      5786 .. 5854  =  69 bp    23 amino acids  =  2.6 kDa Product: β-lactamase confers resistance to ampicillin, carbenicillin, and related antibiotics

AmpR 4994 .. 5854  =  861 bp 286 amino acids  =  31.6 kDa 2 segments Product: β-lactamase confers resistance to ampicillin, carbenicillin, and related antibiotics

ori 4206 .. 4794  =  589 bp high-copy-number ColE1/pMB1/pBR322/pUC origin of replication

ori 4206 .. 4794  =  589 bp high-copy-number ColE1/pMB1/pBR322/pUC origin of replication

SV40 promoter 2382 .. 2739  =  358 bp SV40 enhancer and early promoter

SV40 promoter 2382 .. 2739  =  358 bp SV40 enhancer and early promoter

SV40 poly(A) signal 2067 .. 2188  =  122 bp SV40 polyadenylation signal

SV40 poly(A) signal 2067 .. 2188  =  122 bp SV40 polyadenylation signal

hPEST 1896 .. 2015  =  120 bp 40 amino acids  =  4.2 kDa Product: PEST degradation sequence from mouse ornithine decarboxylase human codon-optimized

hPEST 1896 .. 2015  =  120 bp 40 amino acids  =  4.2 kDa Product: PEST degradation sequence from mouse ornithine decarboxylase human codon-optimized

SRF-RE 38 .. 143  =  106 bp serum response factor response element (5 copies)

SRF-RE 38 .. 143  =  106 bp serum response factor response element (5 copies)

pause site 6021 .. 6112  =  92 bp RNA polymerase II transcriptional pause signal from the human α2 globin gene

pause site 6021 .. 6112  =  92 bp RNA polymerase II transcriptional pause signal from the human α2 globin gene

poly(A) signal 3831 .. 3879  =  49 bp synthetic polyadenylation signal

poly(A) signal 3831 .. 3879  =  49 bp synthetic polyadenylation signal

poly(A) signal 5959 .. 6007  =  49 bp synthetic polyadenylation signal

poly(A) signal 5959 .. 6007  =  49 bp synthetic polyadenylation signal

minP 179 .. 210  =  32 bp minimal TATA-box promoter with low basal activity

minP 179 .. 210  =  32 bp minimal TATA-box promoter with low basal activity

SV40 ori 2590 .. 2725  =  136 bp SV40 origin of replication

SV40 ori 2590 .. 2725  =  136 bp SV40 origin of replication

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