SGN Marker C2_At3g48420

SGN-M7950
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
CoffeeSingle302437 (SGN)
124975 (CGN)
---
Capsicum annuumSingleSGN-U197341---
Lycopersicon CombinedSingleSGN-U214698---
Solanum tuberosumSingleSGN-U249027---
ArabidopsisSingleAt3g48420 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 26384)
Chromosome
3
Position
17.94 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41469
Forward primer (5'-3')
ATGGTCATCGTATCTCTTTCAATG
Accessions and product sizes
Solanum pennellii TA56
300
Solanum lycopersicum TA209
300
Approximate temperature
50°C
Reverse primer (5'-3')
AAATCAACATCCCAAGTTACACC
Digested band sizes (using unknown enzyme)
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 11203
Forward primer (5'-3')
ATGGTCATCGTATCTCTTTCAATG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
AAATCAACATCCCAAGTTACACC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 300
Approximate temperature
50°C
  
PCR data   Exp. ID 11204
Forward primer (5'-3')
ATGGTCATCGTATCTCTTTCAATG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
AAATCAACATCCCAAGTTACACC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 300
Approximate temperature
50°C
  
PCR data   Exp. ID 11205
Forward primer (5'-3')
ATGGTCATCGTATCTCTTTCAATG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
AAATCAACATCCCAAGTTACACC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 300
Approximate temperature
50°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_At3g48420  
%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D7950 marker 7950
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