SGN Marker C2_At3g19900

SGN-M7806
COSII markers are Conserved Ortholog Set II - orthologs between many asterid species

SynonymsNone
Locus associationsNone
Orthologs in this COSII group 
SpeciesCopiesSequence IDCDS/Edited sequencePeptide sequencePredicted introns
CoffeeSingle307356 (SGN)
130226 (CGN)
---
Lycopersicon CombinedSingleSGN-U219658---
ArabidopsisSingleAt3g19900 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 26236)
Chromosome
3
Position
6.92 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41416
Forward primer (5'-3')
ACACATTGAAATGCTGGGGAGCTG
Accessions and product sizes
Solanum lycopersicum TA209
1100
Solanum pennellii TA56
1100
Approximate temperature
55°C
Reverse primer (5'-3')
ATCCATTCCTTTGCACGGCCTC
Digested band sizes (using amplicon difference)
Solanum lycopersicum TA209
1100
Solanum pennellii TA56
480+600
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 11102
Forward primer (5'-3')
ACACATTGAAATGCTGGGGAGCTG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
ATCCATTCCTTTGCACGGCCTC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 850
Approximate temperature
55°C
  
PCR data   Exp. ID 11103
Forward primer (5'-3')
ACACATTGAAATGCTGGGGAGCTG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
ATCCATTCCTTTGCACGGCCTC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 850
Approximate temperature
55°C
  
PCR data   Exp. ID 11104
Forward primer (5'-3')
ACACATTGAAATGCTGGGGAGCTG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
ATCCATTCCTTTGCACGGCCTC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 850
Approximate temperature
55°C
  
PCR data   Exp. ID 11105
Forward primer (5'-3')
ACACATTGAAATGCTGGGGAGCTG
Digested band sizes (using NsiI)
Solanum lycopersicum LA925: 350+500
Solanum pennellii LA716: 360
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
ATCCATTCCTTTGCACGGCCTC
Enzymes
All possible enzymes for pennellii and and lycopersicum: AseI,BsrGI,NsiI,PvuII
All possible enzymes for lycopersicum and pimpinellifolium: BspDI,BsrGI,HaeIII,PvuII,TaqI
  
Accessions and product sizes
Solanum lycopersicum LA925: 850
Solanum pennellii LA716: 850
Approximate temperature
55°C
  
Unigene blast matches for primers 
Universal primers for Asterid species 
No additional PCR data found.
Other COSII sequence data 

Alignment of Arabidopsis CDS and edited Asterid unigenes, FASTA
Alignment of DNA and translated peptides from Arabidopsis CDS and edited Asterid unigenes, plain text
Alignment of translated peptides from Arabidopsis CDS and edited Asterid unigenes, ClustalW
Alignment of translated peptides from Arabidopsis CDS and edited Asterid unigenes, FASTA

Amplicon sequence alignment, FASTA
At3g19900F.cds.txt, plain text
Forward amplicon sequence for S. pimpinellifolium LA1589, AB1 chromatogram - [View]
Forward amplicon sequence for S. pimpinellifolium LA1589, plain text
Forward amplicon sequence for S. lycopersicum TA209, AB1 chromatogram - [View]
Forward amplicon sequence for S. lycopersicum TA209, plain text
Forward amplicon sequence for S. pennellii TA56, AB1 chromatogram - [View]
Forward amplicon sequence for S. pennellii TA56, plain text

Genomic location of C2_At3g19900  
%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D7806 marker 7806
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