SGN Marker C2_At5g46840

SGN-M8975
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
CoffeeSingle308005 (SGN)
125608 (CGN)
---
Capsicum annuumSingleSGN-U198387---
Lycopersicon CombinedMultipleSGN-U222870---
Solanum tuberosumSingleSGN-U249158---
ArabidopsisSingleAt5g46840 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 27442)
Chromosome
5
Position
19.02 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41822
Forward primer (5'-3')
AAGGCTTTACTGAAGGAGTTTGGG
Accessions and product sizes
Solanum lycopersicum TA209
1000
Approximate temperature
Unknown
Reverse primer (5'-3')
TTTGCTTAATGATAGCAGCCTTCC
Digested band sizes (using unknown enzyme)
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 11930
Forward primer (5'-3')
AAGGCTTTACTGAAGGAGTTTGGG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TTTGCTTAATGATAGCAGCCTTCC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 100
Approximate temperature
55°C
  
PCR data   Exp. ID 11931
Forward primer (5'-3')
AAGGCTTTACTGAAGGAGTTTGGG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TTTGCTTAATGATAGCAGCCTTCC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 100
Approximate temperature
55°C
  
PCR data   Exp. ID 11932
Forward primer (5'-3')
AAGGCTTTACTGAAGGAGTTTGGG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TTTGCTTAATGATAGCAGCCTTCC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 100
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_At5g46840  
%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D8975 marker 8975
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