SGN Marker C2_At5g06360

SGN-M8599
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
CoffeeMultiple300972 (SGN)
120708 (CGN)		---
Capsicum annuumSingleSGN-U197506---
Lycopersicon CombinedSingleSGN-U214584---
Solanum tuberosumSingleSGN-U245630---
ArabidopsisSingleAt5g06360 on TAIR---
Mapped locations  
Map: Tomato-EXPEN 2000   
Map version
52 (location: 38753)
Chromosome
9
Position
116.00 cM
Confidence
I
Protocol
CAPS


Tomato-EXPEN 2000

PCR data   Exp. ID 39908
Forward primer (5'-3')
ATTGGCTATGCATGAAGAGTCATC
Accessions and product sizes
Solanum pennellii TA56
550
Solanum lycopersicum TA209
550
Approximate temperature
55°C
Reverse primer (5'-3')
AGAGGCACCTCCCATTTTCCAGC
Digested band sizes (using amplicon difference)
Solanum pennellii TA56
550
Solanum lycopersicum TA209
190+380
Mg+2 concentration
1.5mM
   Enzymes
  

Map: Arabidopsis COSII   
Map version
44 (location: 27050)
Chromosome
5
Position
1.95 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII
Other PCR data 
PCR data   Exp. ID 11642
Forward primer (5'-3')
ATTGGCTATGCATGAAGAGTCATC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
AGAGGCACCTCCCATTTTCCAGC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 250
 Approximate temperature
55°C
  
PCR data   Exp. ID 11643
Forward primer (5'-3')
ATTGGCTATGCATGAAGAGTCATC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
AGAGGCACCTCCCATTTTCCAGC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 250
 Approximate temperature
55°C
  
PCR data   Exp. ID 11644
Forward primer (5'-3')
ATTGGCTATGCATGAAGAGTCATC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
AGAGGCACCTCCCATTTTCCAGC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 250
 Approximate temperature
55°C
  
Unigene blast matches for primers 
SGN-U197506
SGN-U214584
SGN-U271089
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
At5g06360F.cds.txt, plain text
Forward amplicon sequence for S. pimpinellifolium LA1589, AB1 chromatogram - [View]
Forward amplicon sequence for S. pimpinellifolium LA1589, PDF chromatogram
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, PDF chromatogram
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, PDF chromatogram
Forward amplicon sequence for S. pennellii TA56, plain text
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
At5g06360F.cds.txt, plain text
Forward amplicon sequence for S. pimpinellifolium LA1589, AB1 chromatogram - [View]
Forward amplicon sequence for S. pimpinellifolium LA1589, PDF chromatogram
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, PDF chromatogram
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, PDF chromatogram
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_At5g06360  
 %2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D8599 marker 8599
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