SGN Marker C2_At5g64130

SGN-M9189
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
CoffeeSingle311458 (SGN)
125543 (CGN)
---
Lycopersicon CombinedSingleSGN-U218538---
Solanum tuberosumSingleSGN-U247464---
ArabidopsisSingleAt5g64130 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 27665)
Chromosome
5
Position
25.68 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41900
Forward primer (5'-3')
AGCGTGCTTATTTTGATTCTGCTG
Accessions and product sizes
Solanum pennellii TA56
450
Solanum lycopersicum TA209
450
Approximate temperature
55°C
Reverse primer (5'-3')
TGCAATTTTGGGCGAAGTGCCTC
Digested band sizes (using unknown enzyme)
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 12112
Forward primer (5'-3')
AGCGTGCTTATTTTGATTCTGCTG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGCAATTTTGGGCGAAGTGCCTC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 250
Approximate temperature
53°C
  
PCR data   Exp. ID 12113
Forward primer (5'-3')
AGCGTGCTTATTTTGATTCTGCTG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGCAATTTTGGGCGAAGTGCCTC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 250
Approximate temperature
53°C
  
PCR data   Exp. ID 12114
Forward primer (5'-3')
AGCGTGCTTATTTTGATTCTGCTG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGCAATTTTGGGCGAAGTGCCTC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 250
Approximate temperature
53°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]

Amplicon sequence alignment, FASTA
At5g64130F.cds.txt, plain text
Forward amplicon sequence for S. lycopersicum TA209, AB1 chromatogram - [View]
Forward amplicon sequence for S. lycopersicum TA209, plain text
Forward amplicon sequence for S. pennellii TA56, AB1 chromatogram - [View]
Forward amplicon sequence for S. pennellii TA56, plain text

Genomic location of C2_At5g64130  
%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D9189 marker 9189
User comments 
Please wait, checking for comments. (If comments do not show up, access them here)