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Plasmid Files

ptdTomato-C1

Vector for fusing tdTomato to the N-terminus of a partner protein.

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ptdTomato-C1.dna
Map and Sequence File:    Download    Open   
Sequence Author:  Clontech (TaKaRa)
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PciI (5384) ApaLI (5070) BsaI (4455) PfoI (4241) RsrII (3982) BsrDI (3699) PflFI - Tth111I (3584) PluTI (3469) SfoI (3467) NarI (3466) KasI (3465) EagI (3372) BspDI * - ClaI * (3306) SfiI (3241) AseI (7) NdeI (234) SnaBI (340) NheI (591) BmtI (595) AgeI (600) BsrGI (2033) BspEI (2041) BglII (2050) PaeR7I - XhoI (2054) Eco53kI (2059) SacI (2061) HindIII (2063) EcoRI (2070) SalI (2080) AccI (2081) Acc65I (2086) KpnI (2090) SacII (2093) PspOMI (2094) TspMI - XmaI (2097) ApaI (2098) SmaI (2099) BamHI (2101) XbaI * (2113) BclI * (2123) MfeI (2216) HpaI (2229) Bts α I (2305) MluI (2352) DraIII (2582) ptdTomato-C1 5442 bp
PciI  (5384)
1 site
A C A T G T T G T A C A

PciI is inhibited by nonionic detergents.
ApaLI  (5070)
1 site
G T G C A C C A C G T G
BsaI  (4455)
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  (4241)
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  (3982)
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  (3699)
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  (3584)
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  (3584)
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.
PluTI  (3469)
1 site
G G C G C C C C G C G G

Efficient cleavage requires at least two copies of the PluTI recognition sequence.
SfoI  (3467)
1 site
G G C G C C C C G C G G
NarI  (3466)
1 site
G G C G C C C C G C G G

Efficient cleavage requires at least two copies of the NarI recognition sequence.
KasI  (3465)
1 site
G G C G C C C C G C G G
EagI  (3372)
1 site
C G G C C G G C C G G C
BspDI  (3306)
1 site
A T C G A T T A G C T A
* Blocked by Dam methylation.
ClaI  (3306)
1 site
A T C G A T T A G C T A
* Blocked by Dam methylation.
SfiI  (3241)
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.
AseI  (7)
1 site
A T T A A T T A A T T A
NdeI  (234)
1 site
C A T A T G G T A T A C

Prolonged incubation with NdeI may lead to removal of additional nucleotides.
SnaBI  (340)
1 site
T A C G T A A T G C A T
NheI  (591)
1 site
G C T A G C C G A T C G
BmtI  (595)
1 site
G C T A G C C G A T C G
AgeI  (600)
1 site
A C C G G T T G G C C A
BsrGI  (2033)
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.
BspEI  (2041)
1 site
T C C G G A A G G C C T
BglII  (2050)
1 site
A G A T C T T C T A G A
PaeR7I  (2054)
1 site
C T C G A G G A G C T C

PaeR7I does not recognize the sequence CTCTCGAG.
XhoI  (2054)
1 site
C T C G A G G A G C T C
Eco53kI  (2059)
1 site
G A G C T C C T C G A G
SacI  (2061)
1 site
G A G C T C C T C G A G
HindIII  (2063)
1 site
A A G C T T T T C G A A
EcoRI  (2070)
1 site
G A A T T C C T T A A G
SalI  (2080)
1 site
G T C G A C C A G C T G
AccI  (2081)
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  (2086)
1 site
G G T A C C C C A T G G
KpnI  (2090)
1 site
G G T A C C C C A T G G
SacII  (2093)
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  (2094)
1 site
G G G C C C C C C G G G
TspMI  (2097)
1 site
C C C G G G G G G C C C
XmaI  (2097)
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  (2098)
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  (2099)
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  (2101)
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.
XbaI  (2113)
1 site
T C T A G A A G A T C T
* Blocked by Dam methylation.
BclI  (2123)
1 site
T G A T C A A C T A G T
* Blocked by Dam methylation.
BclI is typically used at 50-55°C, but is 50% active at 37°C.
MfeI  (2216)
1 site
C A A T T G G T T A A C
HpaI  (2229)
1 site
G T T A A C C A A T T G
BtsαI  (2305)
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.
MluI  (2352)
1 site
A C G C G T T G C G C A
DraIII  (2582)
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.
tdTomato
613 .. 2040  =  1428 bp
476 amino acids  =  54.2 kDa
Product: tandem dimeric (pseudo-monomeric) derivative of DsRed
mammalian codon-optimized
tdTomato
613 .. 2040  =  1428 bp
476 amino acids  =  54.2 kDa
Product: tandem dimeric (pseudo-monomeric) derivative of DsRed
mammalian codon-optimized
NeoR/KanR
3338 .. 4132  =  795 bp
264 amino acids  =  29.0 kDa
Product: aminoglycoside phosphotransferase from Tn5
confers resistance to neomycin, kanamycin, and G418 (Geneticin)
NeoR/KanR
3338 .. 4132  =  795 bp
264 amino acids  =  29.0 kDa
Product: aminoglycoside phosphotransferase from Tn5
confers resistance to neomycin, kanamycin, and G418 (Geneticin)
ori
4740 .. 5328  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin of replication
ori
4740 .. 5328  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin of replication
f1 ori
2358 .. 2813  =  456 bp
f1 bacteriophage origin of replication; arrow indicates direction of (+) strand synthesis
f1 ori
2358 .. 2813  =  456 bp
f1 bacteriophage origin of replication; arrow indicates direction of (+) strand synthesis
SV40 promoter
2946 .. 3303  =  358 bp
SV40 enhancer and early promoter
SV40 promoter
2946 .. 3303  =  358 bp
SV40 enhancer and early promoter
CMV enhancer
61 .. 364  =  304 bp
human cytomegalovirus immediate early enhancer
CMV enhancer
61 .. 364  =  304 bp
human cytomegalovirus immediate early enhancer
CMV promoter
365 .. 568  =  204 bp
human cytomegalovirus (CMV) immediate early promoter
CMV promoter
365 .. 568  =  204 bp
human cytomegalovirus (CMV) immediate early promoter
SV40 poly(A) signal
2230 .. 2351  =  122 bp
SV40 polyadenylation signal
SV40 poly(A) signal
2230 .. 2351  =  122 bp
SV40 polyadenylation signal
AmpR promoter
2840 .. 2944  =  105 bp
AmpR promoter
2840 .. 2944  =  105 bp
MCS
2041 .. 2106  =  66 bp
multiple cloning site of fluorescent protein plasmids
MCS
2041 .. 2106  =  66 bp
multiple cloning site of fluorescent protein plasmids
HSV TK poly(A) signal
4364 .. 4411  =  48 bp
herpesvirus thymidine kinase polyadenylation signal
HSV TK poly(A) signal
4364 .. 4411  =  48 bp
herpesvirus thymidine kinase polyadenylation signal
stop codons
2115 .. 2125  =  11 bp
stop codons in all three reading frames
stop codons
2115 .. 2125  =  11 bp
stop codons in all three reading frames
SV40 ori
3154 .. 3289  =  136 bp
SV40 origin of replication
SV40 ori
3154 .. 3289  =  136 bp
SV40 origin of replication
ORF:  613 .. 2121  =  1509 bp
ORF:  502 amino acids  =  56.6 kDa
ORF:  4153 .. 4602  =  450 bp
ORF:  149 amino acids  =  16.3 kDa
ORF:  3338 .. 4132  =  795 bp
ORF:  264 amino acids  =  29.0 kDa
ORF:  3510 .. 3896  =  387 bp
ORF:  128 amino acids  =  14.6 kDa
ORF:  598 .. 2139  =  1542 bp
ORF:  513 amino acids  =  51.1 kDa
ORF:  447 .. 680  =  234 bp
ORF:  77 amino acids  =  8.4 kDa
ORF:  3647 .. 4183  =  537 bp
ORF:  178 amino acids  =  19.8 kDa
ORF:  4358 .. 4591  =  234 bp
ORF:  77 amino acids  =  8.6 kDa
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