SGN Marker C2_At3g18430

SGN-M7788
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
CoffeeSingle301392 (SGN)
123408 (CGN)
---
Capsicum annuumSingleSGN-U197834---
Lycopersicon CombinedMultipleSGN-U217814---
Solanum tuberosumSingleSGN-U253556---
ArabidopsisSingleAt3g18430 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 26218)
Chromosome
3
Position
6.33 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41407
Forward primer (5'-3')
TGCCAGAATTCGCAATGAATCCAC
Accessions and product sizes
Solanum lycopersicum TA209
1000
Solanum pennellii TA56
1000
Approximate temperature
55°C
Reverse primer (5'-3')
TTCAAGCCATCCACCATCTTAAGC
Digested band sizes (using unknown enzyme)
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 11095
Forward primer (5'-3')
TGCCAGAATTCGCAATGAATCCAC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TTCAAGCCATCCACCATCTTAAGC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 250
Approximate temperature
55°C
  
PCR data   Exp. ID 11096
Forward primer (5'-3')
TGCCAGAATTCGCAATGAATCCAC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TTCAAGCCATCCACCATCTTAAGC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 250
Approximate temperature
55°C
  
PCR data   Exp. ID 11097
Forward primer (5'-3')
TGCCAGAATTCGCAATGAATCCAC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TTCAAGCCATCCACCATCTTAAGC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 250
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]

Amplicon sequence alignment, FASTA
At3g18430F.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_At3g18430  
%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D7788 marker 7788
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