SGN Marker C2_At5g07960

SGN-M8611
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
CoffeeSingle309260 (SGN)
127579 (CGN)		---
Capsicum annuumSingleSGN-U201451---
Lycopersicon CombinedSingleSGN-U214555---
Solanum tuberosumSingleSGN-U246684---
ArabidopsisSingleAt5g07960 on TAIR---
Mapped locations  
Map: Pepper-COSII   
Map version
58 (location: 41508)
Chromosome
6
Position
98.40 cM
Confidence
F(LOD3)
Protocol
CAPS


Pepper-COSII

PCR data   Exp. ID 43484
Forward primer (5'-3')
AAGATCTTCCTATAGATTACTCCG
Accessions and product sizes
Approximate temperature
55°C
Reverse primer (5'-3')
TGAATATAATAGCAAGCCACGAGC
Digested band sizes (using unknown enzyme)
Mg+2 concentration
Unknown
   Enzymes
  

Map: Tomato-EXPEN 2000   
Map version
52 (location: 38759)
Chromosome
6
Position
52.30 cM
Confidence
I
Protocol
CAPS


Tomato-EXPEN 2000

PCR data   Exp. ID 39911
Forward primer (5'-3')
AAGATCTTCCTATAGATTACTCCG
Accessions and product sizes
Solanum lycopersicum TA209
450
Solanum pennellii TA56
450
Approximate temperature
55°C
Reverse primer (5'-3')
TGAATATAATAGCAAGCCACGAGC
Digested band sizes (using unknown enzyme)
Mg+2 concentration
1.5mM
   Enzymes
  

Map: Arabidopsis COSII   
Map version
44 (location: 27065)
Chromosome
5
Position
2.54 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII
Other PCR data 
PCR data   Exp. ID 11664
Forward primer (5'-3')
AAGATCTTCCTATAGATTACTCCG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGAATATAATAGCAAGCCACGAGC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 450
 Approximate temperature
55°C
  
PCR data   Exp. ID 11665
Forward primer (5'-3')
AAGATCTTCCTATAGATTACTCCG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGAATATAATAGCAAGCCACGAGC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 450
 Approximate temperature
55°C
  
PCR data   Exp. ID 11666
Forward primer (5'-3')
AAGATCTTCCTATAGATTACTCCG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGAATATAATAGCAAGCCACGAGC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 450
 Approximate temperature
55°C
  
Unigene blast matches for primers 
SGN-U214555
SGN-U272758
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]
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]
Related Markers  

Related Genotyped Markers: These markers have been genotyped and share a name with this marker
Genomic location of C2_At5g07960  
 %2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D8611 marker 8611
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