SGN Marker C2_At5g05690

SGN-M8589
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-U203173---
Lycopersicon CombinedSingleSGN-U221868---
Solanum tuberosumSingleSGN-U254081---
ArabidopsisSingleAt5g05690 on TAIR---
Mapped locations  
Map: Tomato-EXPEN 2000   
Map version
52 (location: 38748)
Chromosome
6
Position
24.50 cM
Confidence
I
Protocol
CAPS


Tomato-EXPEN 2000

PCR data   Exp. ID 39906
Forward primer (5'-3')
ATGACCGTGTTTCAAAATACGGC
Accessions and product sizes
Solanum pennellii TA56
850
Solanum lycopersicum TA209
850
Approximate temperature
55°C
Reverse primer (5'-3')
ATGGATCAAAACTCATCAGCTGCTTC
Digested band sizes (using amplicon difference)
Solanum pennellii TA56
300+550
Solanum lycopersicum TA209
850
Mg+2 concentration
1.5mM
   Enzymes
  

Map: Arabidopsis COSII   
Map version
44 (location: 27040)
Chromosome
5
Position
1.70 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII
Other PCR data 
PCR data   Exp. ID 11631
Forward primer (5'-3')
ATGACCGTGTTTCAAAATACGGC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
ATGGATCAAAACTCATCAGCTGCTTC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 650
 Approximate temperature
55°C
  
PCR data   Exp. ID 11632
Forward primer (5'-3')
ATGACCGTGTTTCAAAATACGGC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
ATGGATCAAAACTCATCAGCTGCTTC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 650
 Approximate temperature
55°C
  
PCR data   Exp. ID 11633
Forward primer (5'-3')
ATGACCGTGTTTCAAAATACGGC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
ATGGATCAAAACTCATCAGCTGCTTC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 650
 Approximate temperature
55°C
  
PCR data   Exp. ID 11634
Forward primer (5'-3')
ATGACCGTGTTTCAAAATACGGC
Digested band sizes (using HinfI)
Solanum lycopersicum LA925: 350
Solanum pennellii LA716: 250
 Mg+2 concentration
1.5mM
Reverse primer (5'-3')
ATGGATCAAAACTCATCAGCTGCTTC
Enzymes
All possible enzymes for pennellii and and lycopersicum: BsrGI,HinfI
   
Accessions and product sizes
Solanum pennellii LA716: 650
Solanum lycopersicum LA925: 650
 Approximate temperature
55°C
  
Unigene blast matches for primers 
SGN-U221868
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
At5g05690F.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
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
At5g05690F.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
Related Markers  

Related Genotyped Markers: These markers have been genotyped and share a name with this marker
Genomic location of C2_At5g05690  
 %2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D8589 marker 8589
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