SGN Marker C2_At5g04740

SGN-M8578
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
CoffeeMultiple301945 (SGN)
123542 (CGN)
---
Lycopersicon CombinedSingleSGN-U215413---
Solanum tuberosumSingleSGN-U254964---
ArabidopsisSingleAt5g04740 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 27028)
Chromosome
5
Position
1.37 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41671
Forward primer (5'-3')
TGCTGTATGTTGAAACAGCTGATCG
Accessions and product sizes
Solanum lycopersicum TA209
350
Solanum pennellii TA56
350
Approximate temperature
55°C
Reverse primer (5'-3')
AATGCTGCTCCACCGTAACTGAC
Digested band sizes (using amplicon difference)
Solanum lycopersicum TA209
350
Solanum pennellii TA56
160+180
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 11624
Forward primer (5'-3')
TGCTGTATGTTGAAACAGCTGATCG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
AATGCTGCTCCACCGTAACTGAC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 320
Approximate temperature
55°C
  
PCR data   Exp. ID 11625
Forward primer (5'-3')
TGCTGTATGTTGAAACAGCTGATCG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
AATGCTGCTCCACCGTAACTGAC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 320
Approximate temperature
55°C
  
PCR data   Exp. ID 11626
Forward primer (5'-3')
TGCTGTATGTTGAAACAGCTGATCG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
AATGCTGCTCCACCGTAACTGAC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 320
Approximate temperature
55°C
  
Unigene blast matches for primers 
Universal primers for Asterid species 
No additional PCR data found.
Other COSII sequence data 

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

Amplicon sequence alignment, FASTA
At5g04740F.cds.txt, plain text
Forward amplicon sequence for S. pimpinellifolium LA1589, AB1 chromatogram - [View]
Forward amplicon sequence for S. pimpinellifolium LA1589, 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_At5g04740  
%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D8578 marker 8578
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