SGN Marker C2_At5g49940

SGN-M9020
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
CoffeeSingle304152 (SGN)
119737 (CGN)		---
Capsicum annuumSingleSGN-U201350---
Lycopersicon CombinedSingleSGN-U217558---
Solanum tuberosumSingleSGN-U246318---
ArabidopsisSingleAt5g49940 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 27488)
Chromosome
5
Position
20.33 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41842
Forward primer (5'-3')
TTGCTGTTGAAGCAGTACCAGATG
Accessions and product sizes
Solanum pennellii TA56
2000
Approximate temperature
50°C
Reverse primer (5'-3')
TCGGACTTTAACTATTGGCTCCTC
Digested band sizes (using unknown enzyme)
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 11973
Forward primer (5'-3')
TTGCTGTTGAAGCAGTACCAGATG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TCGGACTTTAACTATTGGCTCCTC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 2000
 Approximate temperature
50°C
  
PCR data   Exp. ID 11974
Forward primer (5'-3')
TTGCTGTTGAAGCAGTACCAGATG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TCGGACTTTAACTATTGGCTCCTC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 2000
 Approximate temperature
50°C
  
Unigene blast matches for primers 
SGN-U217558
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_At5g49940  
 %2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D9020 marker 9020
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