SGN Marker C2_At3g20020

SGN-M7809
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
CoffeeSingle300712 (SGN)
120904 (CGN)		---
Capsicum annuumSingleSGN-U199858---
Solanum tuberosumSingleSGN-U254450---
ArabidopsisSingleAt3g20020 on TAIR---
Mapped locations  
Map: Tomato-EXPEN 2000   
Map version
52 (location: 38493)
Chromosome
4
Position
19.80 cM
Confidence
I
Protocol
CAPS


Tomato-EXPEN 2000

PCR data   Exp. ID 39725
Forward primer (5'-3')
ATGTTACAACCAACAGACGGCGG
Accessions and product sizes
Solanum lycopersicum TA209
3000
Solanum pennellii TA56
3000
Approximate temperature
55°C
Reverse primer (5'-3')
TGAAGTTTTGATGCTGAAAAATTGC
Digested band sizes (using unknown enzyme)
Mg+2 concentration
1.5mM
   Enzymes
  

Map: Arabidopsis COSII   
Map version
44 (location: 26239)
Chromosome
3
Position
6.99 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII
Other PCR data 
PCR data   Exp. ID 11106
Forward primer (5'-3')
ATGTTACAACCAACAGACGGCGG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGAAGTTTTGATGCTGAAAAATTGC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 1000
 Approximate temperature
55°C
  
PCR data   Exp. ID 11107
Forward primer (5'-3')
ATGTTACAACCAACAGACGGCGG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGAAGTTTTGATGCTGAAAAATTGC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 1000
 Approximate temperature
55°C
  
PCR data   Exp. ID 11108
Forward primer (5'-3')
ATGTTACAACCAACAGACGGCGG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGAAGTTTTGATGCTGAAAAATTGC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 1000
 Approximate temperature
55°C
  
Unigene blast matches for primers 
SGN-U281682
Universal primers for Asterid species 
No additional PCR data found.
Other COSII sequence data 
BLASTX result of original unigene sequences against Arabidopsis protein database
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
Input file for PAUP, NEXUS format
Phylogenetic tree
Phylogenetic tree   |   [View]
Amplicon sequence alignment, FASTA
At3g20020F.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
BLASTX result of original unigene sequences against Arabidopsis protein database
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
Input file for PAUP, NEXUS format
Phylogenetic tree
Phylogenetic tree   |   [View]
Amplicon sequence alignment, FASTA
At3g20020F.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_At3g20020  
 %2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D7809 marker 7809
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