SGN Marker C2_At5g39410

SGN-M8901
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
CoffeeSingle306588 (SGN)
126042 (CGN)
---
Capsicum annuumSingleSGN-U202290---
Lycopersicon CombinedMultipleSGN-U219199---
Solanum tuberosumSingleSGN-U245408---
ArabidopsisSingleAt5g39410 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 27366)
Chromosome
5
Position
15.79 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41793
Forward primer (5'-3')
AACCGGTTGTTGAGGCATGTGTTG
Accessions and product sizes
Solanum lycopersicum TA209
250
Solanum pennellii TA56
220
Approximate temperature
53°C
Reverse primer (5'-3')
ACTCCGGTTCTCCACATATATCCAAG
Digested band sizes (using amplicon difference)
Solanum pennellii TA56
220
Solanum lycopersicum TA209
250
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 11877
Forward primer (5'-3')
AACCGGTTGTTGAGGCATGTGTTG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
ACTCCGGTTCTCCACATATATCCAAG
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 150
Approximate temperature
55°C
  
PCR data   Exp. ID 11878
Forward primer (5'-3')
AACCGGTTGTTGAGGCATGTGTTG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
ACTCCGGTTCTCCACATATATCCAAG
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 150
Approximate temperature
55°C
  
PCR data   Exp. ID 11879
Forward primer (5'-3')
AACCGGTTGTTGAGGCATGTGTTG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
ACTCCGGTTCTCCACATATATCCAAG
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 150
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

Genomic location of C2_At5g39410  
%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D8901 marker 8901
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