SGN Marker C2_At3g12300

SGN-M7714
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
CoffeeSingle308958 (SGN)
130109 (CGN)
---
Lycopersicon CombinedSingleSGN-U222111---
Solanum tuberosumSingleSGN-U265891---
ArabidopsisSingleAt3g12300 on TAIR---
Mapped locations  
Map: Tomato-EXPEN 2000   
Map version
52 (location: 38455)
Chromosome
1
Position
92.00 cM
Confidence
I
Protocol
CAPS


Tomato-EXPEN 2000

PCR data   Exp. ID 39695
Forward primer (5'-3')
ATGTCAAACGGCTGCAAGATGAAG
Accessions and product sizes
Solanum pennellii TA56
500
Solanum lycopersicum TA209
500
Approximate temperature
55°C
Reverse primer (5'-3')
TCGAAGAGTTTCAACATAGTTGGTTCC
Digested band sizes (using amplicon difference)
Solanum pennellii TA56
500
Solanum lycopersicum TA209
400
Mg+2 concentration
1.5mM
   Enzymes
  

Map: Arabidopsis COSII   
Map version
44 (location: 26141)
Chromosome
3
Position
3.92 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII
Other PCR data 
PCR data   Exp. ID 11031
Forward primer (5'-3')
ATGTCAAACGGCTGCAAGATGAAG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TCGAAGAGTTTCAACATAGTTGGTTCC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 1250
Approximate temperature
55°C
  
PCR data   Exp. ID 11032
Forward primer (5'-3')
ATGTCAAACGGCTGCAAGATGAAG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TCGAAGAGTTTCAACATAGTTGGTTCC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 1250
Approximate temperature
55°C
  
PCR data   Exp. ID 11033
Forward primer (5'-3')
ATGTCAAACGGCTGCAAGATGAAG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TCGAAGAGTTTCAACATAGTTGGTTCC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 1250
Approximate temperature
55°C
  
PCR data   Exp. ID 11034
Forward primer (5'-3')
ATGTCAAACGGCTGCAAGATGAAG
Digested band sizes (using SspI)
Solanum lycopersicum LA925: 1250
Solanum pennellii LA716: 510+740
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TCGAAGAGTTTCAACATAGTTGGTTCC
Enzymes
All possible enzymes for pennellii and and lycopersicum: BslI,EcoRV,SsPI
All possible enzymes for lycopersicum and pimpinellifolium: BsiHKAI,BslI,BstXI
  
Accessions and product sizes
Solanum pennellii LA716: 1250
Solanum lycopersicum LA925: 1250
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
At3g12300F.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
Forward amplicon sequence for S. hirtum 130005 plant #3, AB1 chromatogram - [View]
Forward amplicon sequence for S. hirtum 130005 plant #3, plain text
Forward amplicon sequence for S. betaceum 6002061 plant #4, AB1 chromatogram - [View]
Forward amplicon sequence for S. betaceum 6002061 plant #4, plain text
Forward amplicon sequence for S. uniloba 6002078 plant #6, AB1 chromatogram - [View]
Forward amplicon sequence for S. uniloba 6002078 plant #6, plain text
Forward amplicon sequence for S. quitoense SE plant #1, AB1 chromatogram - [View]
Forward amplicon sequence for S. quitoense SE plant #1, plain text

Genomic location of C2_At3g12300  
%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D7714 marker 7714
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