SGN Marker C2_At3g55620

SGN-M8052
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
CoffeeSingle300836 (SGN)
123153 (CGN)
---
Capsicum annuumSingleSGN-U204121---
Lycopersicon CombinedMultipleSGN-U214703---
Solanum tuberosumSingleSGN-U247926---
ArabidopsisSingleAt3g55620 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 26488)
Chromosome
3
Position
20.65 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41503
Forward primer (5'-3')
TGGAGTTTTCTCAAAGCTGACCAATGC
Accessions and product sizes
Solanum lycopersicum TA209
250
Solanum pennellii TA56
250
Approximate temperature
55°C
Reverse primer (5'-3')
AACATGATCGTTGCAAGCAATGCAGTT
Digested band sizes (using amplicon difference)
Solanum pennellii TA56
250
Solanum lycopersicum TA209
175
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 11264
Forward primer (5'-3')
ACAGATCAAGAACTTCAGCACTTGAGG
 
 
Mg+2 concentration
3mM
Reverse primer (5'-3')
TCATCAATGCGCTGAACCACAACTC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 100
Approximate temperature
53°C
  
PCR data   Exp. ID 11265
Forward primer (5'-3')
ACAGATCAAGAACTTCAGCACTTGAGG
 
 
Mg+2 concentration
3mM
Reverse primer (5'-3')
TCATCAATGCGCTGAACCACAACTC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 100
Approximate temperature
53°C
  
PCR data   Exp. ID 11266
Forward primer (5'-3')
ACAGATCAAGAACTTCAGCACTTGAGG
 
 
Mg+2 concentration
3mM
Reverse primer (5'-3')
TCATCAATGCGCTGAACCACAACTC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 100
Approximate temperature
53°C
  
Universal primers for Asterid species 
No additional PCR data found.
Other COSII sequence data 

BLASTX result of original unigene sequences against Arabidopsis protein database

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

Input file for PAUP, NEXUS format
Phylogenetic tree
Phylogenetic tree   |   [View]

Genomic location of C2_At3g55620  
%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D8052 marker 8052
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