SGN Marker C2_At5g41950

SGN-M8928
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
CoffeeSingle301781 (SGN)
124471 (CGN)
---
Capsicum annuumSingleSGN-U202732---
Lycopersicon CombinedSingleSGN-U219418---
Solanum tuberosumSingleSGN-U247852---
ArabidopsisSingleAt5g41950 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 27393)
Chromosome
5
Position
16.80 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41803
Forward primer (5'-3')
TGTCCAGCTCAATTGGAACAGTCC
Accessions and product sizes
Solanum pennellii TA56
1300
Solanum lycopersicum TA209
1300
Approximate temperature
55°C
Reverse primer (5'-3')
TGCAGGGCAAGTCCCCAGTTG
Digested band sizes (using amplicon difference)
Solanum lycopersicum TA209
850
Solanum pennellii TA56
400+500
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 11899
Forward primer (5'-3')
TGTCCAGCTCAATTGGAACAGTCC
 
 
Mg+2 concentration
Unknown
Reverse primer (5'-3')
TGCAGGGCAAGTCCCCAGTTG
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 1000
Approximate temperature
Unknown
  
PCR data   Exp. ID 11900
Forward primer (5'-3')
TGTCCAGCTCAATTGGAACAGTCC
 
 
Mg+2 concentration
Unknown
Reverse primer (5'-3')
TGCAGGGCAAGTCCCCAGTTG
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 1000
Approximate temperature
Unknown
  
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_At5g41950  
%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D8928 marker 8928
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