SGN Marker C2_At5g16620

SGN-M8724
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
CoffeeSingle302890 (SGN)
122519 (CGN)
---
Capsicum annuumSingleSGN-U204273---
Lycopersicon CombinedSingleSGN-U229597---
Solanum tuberosumSingleSGN-U263972---
ArabidopsisSingleAt5g16620 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 27182)
Chromosome
5
Position
5.45 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41719
Forward primer (5'-3')
TGGAAACCCAGAATGGGACAACC
Accessions and product sizes
Solanum pennellii TA56
1000
Solanum lycopersicum TA209
1000
Approximate temperature
55°C
Reverse primer (5'-3')
ACCTGACACCCCAGGGAATAGTTC
Digested band sizes (using amplicon difference)
Solanum pennellii TA56
1000
Solanum lycopersicum TA209
750
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 11744
Forward primer (5'-3')
TGGAAACCCAGAATGGGACAACC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
ACCTGACACCCCAGGGAATAGTTC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 1350
Approximate temperature
55°C
  
PCR data   Exp. ID 11745
Forward primer (5'-3')
TGGAAACCCAGAATGGGACAACC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
ACCTGACACCCCAGGGAATAGTTC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 1350
Approximate temperature
55°C
  
PCR data   Exp. ID 11746
Forward primer (5'-3')
TGGAAACCCAGAATGGGACAACC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
ACCTGACACCCCAGGGAATAGTTC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 1350
Approximate temperature
55°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
At5g16620F.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_At5g16620  
%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D8724 marker 8724
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