SGN Marker C2_At5g22875

SGN-M8804
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
CoffeeSingle312051 (SGN)
128931 (CGN)
---
Capsicum annuumSingleSGN-U204549---
Lycopersicon CombinedSingleSGN-U225929---
ArabidopsisSingleAt5g22875 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 27265)
Chromosome
5
Position
7.65 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41749
Forward primer (5'-3')
TTATCCTTTCCGTTTTACATGGC
Accessions and product sizes
Solanum pennellii TA56
350+750
Solanum lycopersicum TA209
750
Approximate temperature
55°C
Reverse primer (5'-3')
AGGGTATGTTTGATGATCAGGTCC
Digested band sizes (using amplicon difference)
Solanum pennellii TA56
650
Solanum lycopersicum TA209
350
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 11795
Forward primer (5'-3')
TTATCCTTTCCGTTTTACATGGC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
AGGGTATGTTTGATGATCAGGTCC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 250
Approximate temperature
55°C
  
PCR data   Exp. ID 11796
Forward primer (5'-3')
TTATCCTTTCCGTTTTACATGGC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
AGGGTATGTTTGATGATCAGGTCC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 250
Approximate temperature
55°C
  
PCR data   Exp. ID 11797
Forward primer (5'-3')
TTATCCTTTCCGTTTTACATGGC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
AGGGTATGTTTGATGATCAGGTCC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 250
Approximate temperature
55°C
  
Unigene blast matches for primers 
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_At5g22875  
%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D8804 marker 8804
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