SGN Marker C2_At5g39790

SGN-M8904
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
CoffeeSingle304836 (SGN)
121484 (CGN)		---
Capsicum annuumSingleSGN-U198238---
Lycopersicon CombinedSingleSGN-U237633---
Solanum tuberosumSingleSGN-U258588---
ArabidopsisSingleAt5g39790 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 27369)
Chromosome
5
Position
15.95 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41794
Forward primer (5'-3')
TGCGCTGGTTAATTTCAAAAGTGAAC
Accessions and product sizes
Solanum pennellii TA56
500
Solanum lycopersicum TA209
450
Approximate temperature
55°C
Reverse primer (5'-3')
TGGGATAGCAGATTTAGCAATTTC
Digested band sizes (using amplicon difference)
Solanum pennellii TA56
500
Solanum lycopersicum TA209
450
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 11880
Forward primer (5'-3')
TGCGCTGGTTAATTTCAAAAGTGAAC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGGGATAGCAGATTTAGCAATTTC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 450
 Approximate temperature
55°C
  
PCR data   Exp. ID 11881
Forward primer (5'-3')
TGCGCTGGTTAATTTCAAAAGTGAAC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGGGATAGCAGATTTAGCAATTTC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 450
 Approximate temperature
55°C
  
PCR data   Exp. ID 11882
Forward primer (5'-3')
TGCGCTGGTTAATTTCAAAAGTGAAC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGGGATAGCAGATTTAGCAATTTC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 450
 Approximate temperature
55°C
  
Unigene blast matches for primers 
SGN-U282559
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]
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]
Related Markers  

Related Genotyped Markers: These markers have been genotyped and share a name with this marker
Genomic location of C2_At5g39790  
 %2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D8904 marker 8904
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