SGN Marker C2_At4g24620

SGN-M8353
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
Capsicum annuumSingleSGN-U201078---
Lycopersicon CombinedSingleSGN-U217793---
Solanum tuberosumSingleSGN-U246253---
ArabidopsisSingleAt4g24620 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 26794)
Chromosome
4
Position
12.71 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41593
Forward primer (5'-3')
TACTTGCTTTGTGTTGGTACTGGGC
Accessions and product sizes
Solanum lycopersicum TA209
850
Solanum pennellii TA56
850
Approximate temperature
55°C
Reverse primer (5'-3')
ATGACAAGCTGCTGTAAATACCTACTG
Digested band sizes (using amplicon difference)
Solanum pennellii TA56
360
Solanum lycopersicum TA209
350+500
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 11480
Forward primer (5'-3')
TACTTGCTTTGTGTTGGTACTGGGC
 
 
Mg+2 concentration
3mM
Reverse primer (5'-3')
ATGACAAGCTGCTGTAAATACCTACTG
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 230
Approximate temperature
53°C
  
PCR data   Exp. ID 11481
Forward primer (5'-3')
TACTTGCTTTGTGTTGGTACTGGGC
 
 
Mg+2 concentration
3mM
Reverse primer (5'-3')
ATGACAAGCTGCTGTAAATACCTACTG
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 230
Approximate temperature
53°C
  
PCR data   Exp. ID 11482
Forward primer (5'-3')
TACTTGCTTTGTGTTGGTACTGGGC
 
 
Mg+2 concentration
3mM
Reverse primer (5'-3')
ATGACAAGCTGCTGTAAATACCTACTG
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 230
Approximate temperature
53°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
At4g24620F.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_At4g24620  
%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D8353 marker 8353
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