pIRESneo3

Mammalian IRES-containing vector with a neomycin (G418) resistance marker for expressing two genes from the same bicistronic transcript.

Sequence Author: Clontech (TaKaRa)

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SgrDI (5273) SspI (5156) PvuI (4722) BpmI (4422) AhdI (4352) BstZ17I (3080) PsiI (2914) BclI * (2788) XbaI (2778) RsrII (2615) Bpu10I (180) NruI (208) SpeI (249) NdeI (484) SnaBI (590) BspDI * - ClaI * (910) EcoRV (914) NheI (927) BmtI (931) AfeI (932) AflII (934) StuI (940) AgeI (948) BsiWI (954) BspEI (962) BsmBI - Esp3I (964) BstBI (969) EcoRI (971) BamHI (977) NotI (984) BstXI (1011) AleI (1242) NsiI (1318) PspOMI (1466) ApaI (1470) AvrII (1504) PmlI (1669) PaqCI (1692) DraIII (1716) BmgBI (1896) AvaI - BsoBI - TspMI - XmaI (1938) SmaI (1940) KasI (2098) NarI (2099) SfoI (2100) PluTI (2102) PflFI - Tth111I (2217) BssHII (2496) NgoMIV (2599) NaeI (2601) pIRESneo3 5275 bp
SgrDI  (5273)
1 site
C G T C G A C G G C A G C T G C
SspI  (5156)
1 site
A A T A T T T T A T A A
PvuI  (4722)
1 site
C G A T C G G C T A G C
BpmI  (4422)
1 site
C T G G A G ( N ) 14 N N G A C C T C ( N ) 14

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.
AhdI  (4352)
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.
BstZ17I  (3080)
1 site
G T A T A C C A T A T G
PsiI  (2914)
1 site
T T A T A A A A T A T T
BclI  (2788)
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.
XbaI  (2778)
1 site
T C T A G A A G A T C T
RsrII  (2615)
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.
Bpu10I  (180)
1 site
C C T N A G C G G A N T C G

Cleavage may be enhanced when more than one copy of the Bpu10I recognition sequence is present.
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.
NruI  (208)
1 site
T C G C G A A G C G C T
SpeI  (249)
1 site
A C T A G T T G A T C A
NdeI  (484)
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  (590)
1 site
T A C G T A A T G C A T
BspDI  (910)
1 site
A T C G A T T A G C T A
* Blocked by Dam methylation.
ClaI  (910)
1 site
A T C G A T T A G C T A
* Blocked by Dam methylation.
EcoRV  (914)
1 site
G A T A T C C T A T A G

EcoRV is reportedly more prone than its isoschizomer Eco32I to delete a base after cleavage.
NheI  (927)
1 site
G C T A G C C G A T C G
BmtI  (931)
1 site
G C T A G C C G A T C G
AfeI  (932)
1 site
A G C G C T T C G C G A
AflII  (934)
1 site
C T T A A G G A A T T C
StuI  (940)
1 site
A G G C C T T C C G G A
AgeI  (948)
1 site
A C C G G T T G G C C A
BsiWI  (954)
1 site
C G T A C G G C A T G C

BsiWI is typically used at 55°C, but is 50% active at 37°C.
BspEI  (962)
1 site
T C C G G A A G G C C T
BsmBI  (964)
1 site
C G T C T C N G C A G A G N ( N ) 4

Sticky ends from different BsmBI sites may not be compatible.
BsmBI-v2 is an improved version of BsmBI.
Esp3I  (964)
1 site
C G T C T C N G C A G A G N ( N ) 4

Sticky ends from different Esp3I sites may not be compatible.
BstBI  (969)
1 site
T T C G A A A A G C T T
EcoRI  (971)
1 site
G A A T T C C T T A A G
BamHI  (977)
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.
NotI  (984)
1 site
G C G G C C G C C G C C G G C G
BstXI  (1011)
1 site
C C A N N N N N N T G G G G T N N N N N N A C C

Sticky ends from different BstXI sites may not be compatible.
AleI  (1242)
1 site
C A C N N N N G T G G T G N N N N C A C
NsiI  (1318)
1 site
A T G C A T T A C G T A
PspOMI  (1466)
1 site
G G G C C C C C C G G G
ApaI  (1470)
1 site
G G G C C C C C C G G G

ApaI can be used between 25°C and 37°C.
AvrII  (1504)
1 site
C C T A G G G G A T C C
PmlI  (1669)
1 site
C A C G T G G T G C A C
PaqCI  (1692)
1 site
C A C C T G C ( N ) 4 G T G G A C G ( N ) 4 ( N ) 4

Efficient cleavage requires at least two copies of the PaqCI recognition sequence.
Sticky ends from different PaqCI sites may not be compatible.
Cleavage can be improved with PaqCI Activator.
DraIII  (1716)
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.
BmgBI  (1896)
1 site
C A C G T C G T G C A G

This recognition sequence is asymmetric, so ligating blunt ends generated by BmgBI will not always regenerate a BmgBI site.
AvaI  (1938)
1 site
C Y C G R G G R G C Y C

Sticky ends from different AvaI sites may not be compatible.
BsoBI  (1938)
1 site
C Y C G R G G R G C Y C

Sticky ends from different BsoBI sites may not be compatible.
BsoBI is typically used at 37°C, but can be used at temperatures up to 65°C.
TspMI  (1938)
1 site
C C C G G G G G G C C C
XmaI  (1938)
1 site
C C C G G G G G G C C C

Cleavage may be enhanced when more than one copy of the XmaI recognition sequence is present.
SmaI  (1940)
1 site
C C C G G G G G G C C C

SmaI can be used at 37°C for brief incubations.
KasI  (2098)
1 site
G G C G C C C C G C G G
NarI  (2099)
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.
SfoI  (2100)
1 site
G G C G C C C C G C G G
PluTI  (2102)
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.
PflFI  (2217)
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  (2217)
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.
BssHII  (2496)
1 site
G C G C G C C G C G C G

BssHII is typically used at 50°C, but is 75% active at 37°C.
NgoMIV  (2599)
1 site
G C C G G C C G G C C G

Efficient cleavage requires at least two copies of the NgoMIV recognition sequence.
NaeI  (2601)
1 site
G C C G G C C G G C C G

Efficient cleavage requires at least two copies of the NaeI recognition sequence.
AmpR
4279 .. 5139  =  861 bp
286 amino acids  =  31.6 kDa
2 segments
   Segment 2:  
   4279 .. 5070  =  792 bp
   263 amino acids  =  28.9 kDa
Product: β-lactamase
confers resistance to ampicillin, carbenicillin, and related antibiotics
AmpR
4279 .. 5139  =  861 bp
286 amino acids  =  31.6 kDa
2 segments
   Segment 1:  signal sequence  
   5071 .. 5139  =  69 bp
   23 amino acids  =  2.6 kDa
Product: β-lactamase
confers resistance to ampicillin, carbenicillin, and related antibiotics
AmpR
4279 .. 5139  =  861 bp
286 amino acids  =  31.6 kDa
2 segments
Product: β-lactamase
confers resistance to ampicillin, carbenicillin, and related antibiotics
NeoR/KanR
1962 .. 2765  =  804 bp
267 amino acids  =  29.2 kDa
Product: aminoglycoside phosphotransferase from Tn5
confers resistance to neomycin, kanamycin, and G418 (Geneticin)
NeoR/KanR
1962 .. 2765  =  804 bp
267 amino acids  =  29.2 kDa
Product: aminoglycoside phosphotransferase from Tn5
confers resistance to neomycin, kanamycin, and G418 (Geneticin)
ori
3520 .. 4108  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin of replication
ori
3520 .. 4108  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin of replication
IRES
1353 .. 1926  =  574 bp
internal ribosome entry site (IRES) of the encephalomyocarditis virus (EMCV)
IRES
1353 .. 1926  =  574 bp
internal ribosome entry site (IRES) of the encephalomyocarditis virus (EMCV)
CMV enhancer
235 .. 614  =  380 bp
human cytomegalovirus immediate early enhancer
CMV enhancer
235 .. 614  =  380 bp
human cytomegalovirus immediate early enhancer
chimeric intron
1051 .. 1280  =  230 bp
chimera between introns from adenovirus and immunoglobulin heavy chain genes
chimeric intron
1051 .. 1280  =  230 bp
chimera between introns from adenovirus and immunoglobulin heavy chain genes
CMV promoter
615 .. 818  =  204 bp
human cytomegalovirus (CMV) immediate early promoter
CMV promoter
615 .. 818  =  204 bp
human cytomegalovirus (CMV) immediate early promoter
SV40 poly(A) signal
2895 .. 3016  =  122 bp
SV40 polyadenylation signal
SV40 poly(A) signal
2895 .. 3016  =  122 bp
SV40 polyadenylation signal
AmpR promoter
5140 .. 5244  =  105 bp
AmpR promoter
5140 .. 5244  =  105 bp
MCS
912 .. 1015  =  104 bp
multiple cloning site
MCS
912 .. 1015  =  104 bp
multiple cloning site
T7 promoter
863 .. 881  =  19 bp
promoter for bacteriophage T7 RNA polymerase
T7 promoter
863 .. 881  =  19 bp
promoter for bacteriophage T7 RNA polymerase
ORF:  2143 .. 2529  =  387 bp
ORF:  128 amino acids  =  14.6 kDa
ORF:  4409 .. 4675  =  267 bp
ORF:  88 amino acids  =  9.2 kDa
ORF:  1836 .. 2765  =  930 bp
ORF:  309 amino acids  =  33.9 kDa
ORF:  935 .. 1315  =  381 bp
ORF:  126 amino acids  =  13.8 kDa
ORF:  4279 .. 5139  =  861 bp
ORF:  286 amino acids  =  31.6 kDa
ORF:  2280 .. 2804  =  525 bp
ORF:  174 amino acids  =  19.5 kDa
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