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Plasmid Files

pHom-1

Mammalian vector encoding an FKBP homodimerizer domain, for creating soluble fusion proteins that can be dimerized with a drug. Also known as pC4-FV1E.

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pHom-1.dna
Map and Sequence File:    Download    Open   
Sequence Author:  Clontech (TaKaRa)
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PvuII (5259) NaeI (5057) NgoMIV (5055) DraIII (4954) PfoI (4539) XmnI (4105) BsaI (3555) AhdI (3494) MluI (1) SnaBI (298) EcoRI (656) XbaI (682) AarI (684) TspMI - XmaI (803) SmaI (805) SpeI (1009) BsiWI (1019) BamHI (1054) KflI - PpuMI (1083) HincII (1235) MfeI (1425) PspOMI (1600) ApaI (1604) Bsu36I (1704) MscI (1745) BstXI (1753) BglII (1774) PflMI (1980) AbsI - PaeR7I - PspXI - XhoI (2223) AvrII (2246) StuI (2251) SfiI (2300) BspQI - SapI (2485) pHom-1 5371 bp
PvuII  (5259)
1 site
C A G C T G G T C G A C
NaeI  (5057)
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.
NgoMIV  (5055)
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.
DraIII  (4954)
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.
PfoI  (4539)
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.
XmnI  (4105)
1 site
G A A N N N N T T C C T T N N N N A A G
BsaI  (3555)
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.
AhdI  (3494)
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.
MluI  (1)
1 site
A C G C G T T G C G C A
SnaBI  (298)
1 site
T A C G T A A T G C A T
EcoRI  (656)
1 site
G A A T T C C T T A A G
XbaI  (682)
1 site
T C T A G A A G A T C T
AarI  (684)
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 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.
TspMI  (803)
1 site
C C C G G G G G G C C C
XmaI  (803)
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.
SmaI  (805)
1 site
C C C G G G G G G C C C

SmaI can be used at 37°C for brief incubations.
SpeI  (1009)
1 site
A C T A G T T G A T C A
BsiWI  (1019)
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.
BamHI  (1054)
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.
KflI  (1083)
1 site
G G G W C C C C C C W G G G

Sticky ends from different KflI sites may not be compatible.
PpuMI  (1083)
1 site
R G G W C C Y Y C C W G G R

Sticky ends from different PpuMI sites may not be compatible.
HincII  (1235)
1 site
G T Y R A C C A R Y T G
MfeI  (1425)
1 site
C A A T T G G T T A A C
PspOMI  (1600)
1 site
G G G C C C C C C G G G
ApaI  (1604)
1 site
G G G C C C C C C G G G

ApaI can be used between 25°C and 37°C.
Bsu36I  (1704)
1 site
C C T N A G G G G A N T C C

Sticky ends from different Bsu36I sites may not be compatible.
MscI  (1745)
1 site
T G G C C A A C C G G T
BstXI  (1753)
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.
BglII  (1774)
1 site
A G A T C T T C T A G A
PflMI  (1980)
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.
AbsI  (2223)
1 site
C C T C G A G G G G A G C T C C
PaeR7I  (2223)
1 site
C T C G A G G A G C T C

PaeR7I does not recognize the sequence CTCTCGAG.
PspXI  (2223)
1 site
V C T C G A G B B G A G C T C V
XhoI  (2223)
1 site
C T C G A G G A G C T C
AvrII  (2246)
1 site
C C T A G G G G A T C C
StuI  (2251)
1 site
A G G C C T T C C G G A
SfiI  (2300)
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.
BspQI  (2485)
1 site
G C T C T T C N C G A G A A G N N N N

Sticky ends from different BspQI sites may not be compatible.
SapI  (2485)
1 site
G C T C T T C N C G A G A A G N N N N

Sticky ends from different SapI sites may not be compatible.
SapI gradually settles in solution, so a tube of SapI should be mixed before removing an aliquot.
AmpR
3421 .. 4293  =  873 bp
290 amino acids  =  32.0 kDa
   Segment 2:  
   3421 .. 4224  =  804 bp
   267 amino acids  =  29.4 kDa
Product: β-lactamase
confers resistance to ampicillin, carbenicillin, and related antibiotics
AmpR
3421 .. 4293  =  873 bp
290 amino acids  =  32.0 kDa
   Segment 1:  signal sequence  
   4225 .. 4293  =  69 bp
   23 amino acids  =  2.6 kDa
Product: β-lactamase
confers resistance to ampicillin, carbenicillin, and related antibiotics
AmpR
3421 .. 4293  =  873 bp
290 amino acids  =  32.0 kDa
2 segments
Product: β-lactamase
confers resistance to ampicillin, carbenicillin, and related antibiotics
ori
2662 .. 3250  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin of replication
ori
2662 .. 3250  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin of replication
β-globin intron
1073 .. 1645  =  573 bp
intron from rabbit β-globin gene
β-globin intron
1073 .. 1645  =  573 bp
intron from rabbit β-globin gene
f1 ori
4730 .. 5185  =  456 bp
f1 bacteriophage origin of replication; arrow indicates direction of (+) strand synthesis
f1 ori
4730 .. 5185  =  456 bp
f1 bacteriophage origin of replication; arrow indicates direction of (+) strand synthesis
DmrB
688 .. 1008  =  321 bp
107 amino acids  =  11.8 kDa
Product: F36V mutant of FK506-binding protein FKBP12
binds synthetic ligands that do not bind wild-type FKBP
DmrB
688 .. 1008  =  321 bp
107 amino acids  =  11.8 kDa
Product: F36V mutant of FK506-binding protein FKBP12
binds synthetic ligands that do not bind wild-type FKBP
CMV enhancer
19 .. 322  =  304 bp
human cytomegalovirus immediate early enhancer
CMV enhancer
19 .. 322  =  304 bp
human cytomegalovirus immediate early enhancer
CMV promoter
323 .. 526  =  204 bp
human cytomegalovirus (CMV) immediate early promoter
CMV promoter
323 .. 526  =  204 bp
human cytomegalovirus (CMV) immediate early promoter
SV40 promoter
2230 .. 2425  =  196 bp
SV40 promoter
2230 .. 2425  =  196 bp
AmpR promoter
4294 .. 4398  =  105 bp
AmpR promoter
4294 .. 4398  =  105 bp
β-globin poly(A) signal
1842 .. 1897  =  56 bp
rabbit β-globin polyadenylation signal
β-globin poly(A) signal
1842 .. 1897  =  56 bp
rabbit β-globin polyadenylation signal
HSV TK 5'-UTR
616 .. 655  =  40 bp
5' untranslated region from the herpes simplex virus thymidine kinase gene
HSV TK 5'-UTR
616 .. 655  =  40 bp
5' untranslated region from the herpes simplex virus thymidine kinase gene
HA
1015 .. 1041  =  27 bp
9 amino acids  =  1.1 kDa
Product: HA (human influenza hemagglutinin) epitope tag
HA
1015 .. 1041  =  27 bp
9 amino acids  =  1.1 kDa
Product: HA (human influenza hemagglutinin) epitope tag
ATG
676 .. 678  =  3 bp
1 amino acid  =  149.2 Da
Product: start codon
ATG
676 .. 678  =  3 bp
1 amino acid  =  149.2 Da
Product: start codon
SV40 ori
2250 .. 2385  =  136 bp
SV40 origin of replication
SV40 ori
2250 .. 2385  =  136 bp
SV40 origin of replication
ORF:  676 .. 1044  =  369 bp
ORF:  122 amino acids  =  13.5 kDa
ORF:  3551 .. 3817  =  267 bp
ORF:  88 amino acids  =  9.2 kDa
ORF:  5201 .. 105  =  276 bp
ORF:  91 amino acids  =  9.5 kDa
ORF:  3421 .. 4293  =  873 bp
ORF:  290 amino acids  =  32.0 kDa
ORF:  405 .. 677  =  273 bp
ORF:  90 amino acids  =  9.7 kDa
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