SGN Marker C2_At5g13240

SGN-M8678
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
CoffeeSingle304421 (SGN)
122955 (CGN)		---
Lycopersicon CombinedSingleSGN-U221267---
Solanum tuberosumMultipleSGN-U258613---
ArabidopsisSingleAt5g13240 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 27136)
Chromosome
5
Position
4.23 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41708
Forward primer (5'-3')
AGTTTTTCACTGAAGAGAGCTGGG
Accessions and product sizes
Solanum lycopersicum TA209
1300
Solanum pennellii TA56
1300
Approximate temperature
55°C
Reverse primer (5'-3')
TGCCTTCATTTGCGTCAAGCC
Digested band sizes (using amplicon difference)
Solanum pennellii TA56
700
Solanum lycopersicum TA209
650
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 11711
Forward primer (5'-3')
AGTTTTTCACTGAAGAGAGCTGGG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGCCTTCATTTGCGTCAAGCC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 580
 Approximate temperature
55°C
  
PCR data   Exp. ID 11712
Forward primer (5'-3')
AGTTTTTCACTGAAGAGAGCTGGG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGCCTTCATTTGCGTCAAGCC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 580
 Approximate temperature
55°C
  
PCR data   Exp. ID 11713
Forward primer (5'-3')
AGTTTTTCACTGAAGAGAGCTGGG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGCCTTCATTTGCGTCAAGCC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 580
 Approximate temperature
55°C
  
Unigene blast matches for primers 
SGN-U221267
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
At5g13240F.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
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
At5g13240F.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
Related Markers  

Related Genotyped Markers: These markers have been genotyped and share a name with this marker
Genomic location of C2_At5g13240  
 %2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D8678 marker 8678
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