SGN Marker C2_At5g11280

SGN-M8644
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
CoffeeMultiple303581 (SGN)
125134 (CGN)		---
Capsicum annuumSingleSGN-U197232---
Lycopersicon CombinedSingleSGN-U216708---
Solanum tuberosumSingleSGN-U251267---
ArabidopsisSingleAt5g11280 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 27101)
Chromosome
5
Position
3.60 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41698
Forward primer (5'-3')
AGCAGGACGGTGCCAAGCTGG
Accessions and product sizes
Solanum lycopersicum TA209
400
Solanum pennellii TA56
400
Approximate temperature
55°C
Reverse primer (5'-3')
TGTCGGCTTGTTAAGTATCCCTTC
Digested band sizes (using unknown enzyme)
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 11684
Forward primer (5'-3')
AGCAGGACGGTGCCAAGCTGG
 
 
Mg+2 concentration
Unknown
Reverse primer (5'-3')
TGTCGGCTTGTTAAGTATCCCTTC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 250
 Approximate temperature
Unknown
  
Unigene blast matches for primers 
SGN-U216708
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_At5g11280  
 %2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D8644 marker 8644
User comments 
Please wait, checking for comments. (If comments do not show up, access them here)