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Plasmid Files

pmCherry-1

Promoterless mCherry reporter vector.

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pmCherry-1.dna
Map and Sequence File:    Download    Open   
Sequence Author:  Clontech (TaKaRa)
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AflIII - PciI (4082) EcoO109I (3262) BsaI (3153) PfoI (2939) RsrII (2680) BsrDI (2397) PflFI - Tth111I (2282) FspI (2266) AfeI (14) BglII (27) PaeR7I - XhoI (31) Eco53kI (36) SacI (38) HindIII (40) EcoRI (47) SalI (57) AccI (58) Acc65I (63) KpnI (67) SacII (70) PspOMI (71) TspMI - XmaI (74) ApaI (75) SmaI (76) BamHI (78) AgeI (84) AhdI (291) SbfI (452) BbsI (532) PflMI (536) BbvCI - Bpu10I (635) BsgI (691) SgrAI (778) XcmI (783) BsrGI - TatI (797) NotI (808) XbaI * (818) MfeI (914) HpaI (927) Bts α I (1003) AflII (1046) DraIII (1280) SexAI * (1753) BglI - SfiI (1939) BspDI * - ClaI * (2004) pmCherry-1 4140 bp
AflIII  (4082)
1 site
A C R Y G T T G Y R C A

Sticky ends from different AflIII sites may not be compatible.
PciI  (4082)
1 site
A C A T G T T G T A C A

PciI is inhibited by nonionic detergents.
EcoO109I  (3262)
1 site
R G G N C C Y Y C C N G G R

Sticky ends from different EcoO109I sites may not be compatible.
BsaI  (3153)
1 site
G G T C T C N C C A G A G N ( N ) 4

Sticky ends from different BsaI sites may not be compatible.
BsaI can be used between 37°C and 50°C.
PfoI  (2939)
1 site
T C C N G G A A G G N C C T

Sticky ends from different PfoI sites may not be compatible.
RsrII  (2680)
1 site
C G G W C C G G C C W G G C

Efficient cleavage requires at least two copies of the RsrII recognition sequence.
Sticky ends from different RsrII sites may not be compatible.
For full activity, add fresh DTT.
BsrDI  (2397)
1 site
G C A A T G N N C G T T A C

Sticky ends from different BsrDI sites may not be compatible.
PflFI  (2282)
1 site
G A C N N N G T C C T G N N N C A G

The 1-base overhangs produced by PflFI may be hard to ligate.
Sticky ends from different PflFI sites may not be compatible.
Tth111I  (2282)
1 site
G A C N N N G T C C T G N N N C A G

The 1-base overhangs produced by Tth111I may be hard to ligate.
Sticky ends from different Tth111I sites may not be compatible.
FspI  (2266)
1 site
T G C G C A A C G C G T
AfeI  (14)
1 site
A G C G C T T C G C G A
BglII  (27)
1 site
A G A T C T T C T A G A
PaeR7I  (31)
1 site
C T C G A G G A G C T C

PaeR7I does not recognize the sequence CTCTCGAG.
XhoI  (31)
1 site
C T C G A G G A G C T C
Eco53kI  (36)
1 site
G A G C T C C T C G A G
SacI  (38)
1 site
G A G C T C C T C G A G
HindIII  (40)
1 site
A A G C T T T T C G A A
EcoRI  (47)
1 site
G A A T T C C T T A A G
SalI  (57)
1 site
G T C G A C C A G C T G
AccI  (58)
1 site
G T M K A C C A K M T G

Efficient cleavage with AccI requires ≥13 bp on each side of the recognition sequence.
Sticky ends from different AccI sites may not be compatible.
Acc65I  (63)
1 site
G G T A C C C C A T G G
KpnI  (67)
1 site
G G T A C C C C A T G G
SacII  (70)
1 site
C C G C G G G G C G C C

Efficient cleavage requires at least two copies of the SacII recognition sequence.
PspOMI  (71)
1 site
G G G C C C C C C G G G
TspMI  (74)
1 site
C C C G G G G G G C C C
XmaI  (74)
1 site
C C C G G G G G G C C C

Efficient cleavage requires at least two copies of the XmaI recognition sequence.
Full cleavage with XmaI may require a long incubation.
ApaI  (75)
1 site
G G G C C C C C C G G G

ApaI can be used between 25°C and 37°C.
SmaI  (76)
1 site
C C C G G G G G G C C C

SmaI can be used at 37°C for brief incubations.
BamHI  (78)
1 site
G G A T C C C C T A G G

After cleavage, BamHI-HF™ (but not the original BamHI) can remain bound to DNA and alter its electrophoretic mobility.
AgeI  (84)
1 site
A C C G G T T G G C C A
AhdI  (291)
1 site
G A C N N N N N G T C C T G N N N N N C A G

The 1-base overhangs produced by AhdI may be hard to ligate.
Sticky ends from different AhdI sites may not be compatible.
SbfI  (452)
1 site
C C T G C A G G G G A C G T C C
BbsI  (532)
1 site
G A A G A C N N C T T C T G N N ( N ) 4

Sticky ends from different BbsI sites may not be compatible.
BbsI gradually loses activity when stored at -20°C.
PflMI  (536)
1 site
C C A N N N N N T G G G G T N N N N N A C C

Sticky ends from different PflMI sites may not be compatible.
BbvCI  (635)
1 site
C C T C A G C G G A G T C G
Bpu10I  (635)
1 site
C C T N A G C G G A N T C G

Efficient cleavage requires at least two copies of the Bpu10I recognition sequence.
This recognition sequence is asymmetric, so ligating sticky ends generated by Bpu10I will not always regenerate a Bpu10I site.
Sticky ends from different Bpu10I sites may not be compatible.
BsgI  (691)
1 site
G T G C A G ( N ) 14 N N C A C G T C ( N ) 14

Efficient cleavage requires at least two copies of the BsgI recognition sequence.
Sticky ends from different BsgI sites may not be compatible.
For full activity, add fresh S-adenosylmethionine (SAM).
SgrAI  (778)
1 site
C R C C G G Y G G Y G G C C R C

Efficient cleavage requires at least two copies of the SgrAI recognition sequence.
XcmI  (783)
1 site
C C A N N N N N N N N N T G G G G T N N N N N N N N N A C C

The 1-base overhangs produced by XcmI may be hard to ligate.
Sticky ends from different XcmI sites may not be compatible.
BsrGI  (797)
1 site
T G T A C A A C A T G T

BsrGI is typically used at 37°C, but is even more active at 60°C.
TatI  (797)
1 site
W G T A C W W C A T G W
NotI  (808)
1 site
G C G G C C G C C G C C G G C G
XbaI  (818)
1 site
T C T A G A A G A T C T
* Blocked by Dam methylation.
MfeI  (914)
1 site
C A A T T G G T T A A C
HpaI  (927)
1 site
G T T A A C C A A T T G
BtsαI  (1003)
1 site
G C A G T G N N C G T C A C

Sticky ends from different BtsαI sites may not be compatible.
AflII  (1046)
1 site
C T T A A G G A A T T C
DraIII  (1280)
1 site
C A C N N N G T G G T G N N N C A C

Sticky ends from different DraIII sites may not be compatible.
SexAI  (1753)
1 site
A C C W G G T T G G W C C A
* Blocked by Dcm methylation.
Sticky ends from different SexAI sites may not be compatible.
BglI  (1939)
1 site
G C C N N N N N G G C C G G N N N N N C C G

Sticky ends from different BglI sites may not be compatible.
SfiI  (1939)
1 site
G G C C N N N N N G G C C C C G G N N N N N C C G G

Efficient cleavage requires at least two copies of the SfiI recognition sequence.
Sticky ends from different SfiI sites may not be compatible.
BspDI  (2004)
1 site
A T C G A T T A G C T A
* Blocked by Dam methylation.
ClaI  (2004)
1 site
A T C G A T T A G C T A
* Blocked by Dam methylation.
NeoR/KanR
2036 .. 2830  =  795 bp
264 amino acids  =  29.0 kDa
Product: aminoglycoside phosphotransferase from Tn5
confers resistance to neomycin, kanamycin, and G418 (Geneticin)
NeoR/KanR
2036 .. 2830  =  795 bp
264 amino acids  =  29.0 kDa
Product: aminoglycoside phosphotransferase from Tn5
confers resistance to neomycin, kanamycin, and G418 (Geneticin)
mCherry
97 .. 807  =  711 bp
236 amino acids  =  26.7 kDa
Product: monomeric derivative of DsRed fluorescent protein
mammalian codon-optimized
mCherry
97 .. 807  =  711 bp
236 amino acids  =  26.7 kDa
Product: monomeric derivative of DsRed fluorescent protein
mammalian codon-optimized
ori
3438 .. 4026  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin of replication
ori
3438 .. 4026  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin of replication
f1 ori
1056 .. 1511  =  456 bp
f1 bacteriophage origin of replication; arrow indicates direction of (+) strand synthesis
f1 ori
1056 .. 1511  =  456 bp
f1 bacteriophage origin of replication; arrow indicates direction of (+) strand synthesis
SV40 promoter
1644 .. 2001  =  358 bp
SV40 enhancer and early promoter
SV40 promoter
1644 .. 2001  =  358 bp
SV40 enhancer and early promoter
SV40 poly(A) signal
928 .. 1049  =  122 bp
SV40 polyadenylation signal
SV40 poly(A) signal
928 .. 1049  =  122 bp
SV40 polyadenylation signal
AmpR promoter
1538 .. 1642  =  105 bp
AmpR promoter
1538 .. 1642  =  105 bp
MCS
12 .. 89  =  78 bp
multiple cloning site of fluorescent protein plasmids
MCS
12 .. 89  =  78 bp
multiple cloning site of fluorescent protein plasmids
HSV TK poly(A) signal
3062 .. 3109  =  48 bp
herpesvirus thymidine kinase polyadenylation signal
HSV TK poly(A) signal
3062 .. 3109  =  48 bp
herpesvirus thymidine kinase polyadenylation signal
SV40 ori
1852 .. 1987  =  136 bp
SV40 origin of replication
SV40 ori
1852 .. 1987  =  136 bp
SV40 origin of replication
ORF:  97 .. 807  =  711 bp
ORF:  236 amino acids  =  26.7 kDa
ORF:  2851 .. 3300  =  450 bp
ORF:  149 amino acids  =  16.3 kDa
ORF:  2036 .. 2830  =  795 bp
ORF:  264 amino acids  =  29.0 kDa
ORF:  2208 .. 2594  =  387 bp
ORF:  128 amino acids  =  14.6 kDa
ORF:  25 .. 837  =  813 bp
ORF:  270 amino acids  =  27.4 kDa
ORF:  4080 .. 164  =  225 bp
ORF:  74 amino acids
ORF:  2345 .. 2881  =  537 bp
ORF:  178 amino acids  =  19.8 kDa
ORF:  3056 .. 3289  =  234 bp
ORF:  77 amino acids  =  8.6 kDa
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