SGN Marker C2_At5g27390

SGN-M8857
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
Lycopersicon CombinedSingleSGN-U217731---
Solanum tuberosumSingleSGN-U251807---
ArabidopsisSingleAt5g27390 on TAIR---
Mapped locations  
Map: Tomato-EXPEN 2000   
Map version
52 (location: 38837)
Chromosome
8
Position
20.50 cM
Confidence
I
Protocol
CAPS


Tomato-EXPEN 2000

PCR data   Exp. ID 39954
Forward primer (5'-3')
ATGGCCATGTCCACGCTCCTC
Accessions and product sizes
Solanum pennellii TA56
230
Solanum lycopersicum TA209
230
Approximate temperature
53°C
Reverse primer (5'-3')
TGGGCTTAGCCTTATCTCCATATAG
Digested band sizes (using unknown enzyme)
Mg+2 concentration
1.5mM
   Enzymes
  

Map: Arabidopsis COSII   
Map version
44 (location: 27319)
Chromosome
5
Position
9.67 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII
Other PCR data 
PCR data   Exp. ID 11837
Forward primer (5'-3')
ATGGCCATGTCCACGCTCCTC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGGGCTTAGCCTTATCTCCATATAG
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 900
Approximate temperature
55°C
  
PCR data   Exp. ID 11838
Forward primer (5'-3')
ATGGCCATGTCCACGCTCCTC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGGGCTTAGCCTTATCTCCATATAG
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 900
Approximate temperature
55°C
  
PCR data   Exp. ID 11839
Forward primer (5'-3')
ATGGCCATGTCCACGCTCCTC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGGGCTTAGCCTTATCTCCATATAG
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 900
Approximate temperature
55°C
  
PCR data   Exp. ID 11840
Forward primer (5'-3')
ATGGCCATGTCCACGCTCCTC
Digested band sizes (using DpnII)
Solanum pennellii LA716: 300+600
Solanum lycopersicum LA925: 400+500
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGGGCTTAGCCTTATCTCCATATAG
Enzymes
All possible enzymes for pennellii and and lycopersicum: BstYI,DpnII,HincII,HinfI,RsaI,TspRI
All possible enzymes for lycopersicum and pimpinellifolium: DpnII,RsaI
  
Accessions and product sizes
Solanum pennellii LA716: 900
Solanum lycopersicum LA925: 900
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
At5g27390F.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_At5g27390  
%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D8857 marker 8857
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