SGN Marker C2_At2g13540

SGN-M7191
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
CoffeeSingle306492 (SGN)
126099 (CGN)
---
Capsicum annuumSingleSGN-U200690---
Lycopersicon CombinedSingleSGN-U222923---
ArabidopsisSingleAt2g13540 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 25606)
Chromosome
2
Position
5.65 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41202
Forward primer (5'-3')
TGTTGTTCAAACACTTCTCGACATCGG
Accessions and product sizes
Solanum lycopersicum TA209
900
Solanum pennellii TA56
900
Approximate temperature
55°C
Reverse primer (5'-3')
TCTTACAGGGTTTTCACCAAGAACAGG
Digested band sizes (using amplicon difference)
Solanum lycopersicum TA209
550
Solanum pennellii TA56
850
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 10552
Forward primer (5'-3')
TGTTGTTCAAACACTTCTCGACATCGG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TCTTACAGGGTTTTCACCAAGAACAGG
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 1650
Approximate temperature
55°C
  
PCR data   Exp. ID 10553
Forward primer (5'-3')
TGTTGTTCAAACACTTCTCGACATCGG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TCTTACAGGGTTTTCACCAAGAACAGG
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 1650
Approximate temperature
55°C
  
PCR data   Exp. ID 10554
Forward primer (5'-3')
TGTTGTTCAAACACTTCTCGACATCGG
Digested band sizes (using CfoI)
Solanum pennellii LA716: 1650
Solanum lycopersicum LA925: 700+950
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TCTTACAGGGTTTTCACCAAGAACAGG
Enzymes
All possible enzymes for pennellii and and lycopersicum: BsiHKAI,CfoI/HhaI,Hpy188I,RsaI,ScaI,TspRI
All possible enzymes for lycopersicum and pimpinellifolium: BstBI,TaqI
  
Accessions and product sizes
Solanum lycopersicum LA925: 1650
Solanum pennellii LA716: 1650
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
At2g13540F.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

Genomic location of C2_At2g13540  
%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D7191 marker 7191
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