SGN Marker C2_At5g12470

SGN-M8668
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
CoffeeSingle307360 (SGN)
132442 (CGN)		---
Capsicum annuumSingleSGN-U198709---
Lycopersicon CombinedMultipleSGN-U223240---
Solanum tuberosumSingleSGN-U250930---
ArabidopsisSingleAt5g12470 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 27126)
Chromosome
5
Position
4.05 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41705
Forward primer (5'-3')
TGTATCAACCAGTGTAGCTTATGGTG
Accessions and product sizes
Solanum pennellii TA56
800
Solanum lycopersicum TA209
800
Approximate temperature
55°C
Reverse primer (5'-3')
ATGGGCTCCAAGATCCGTTGTTC
Digested band sizes (using unknown enzyme)
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 11704
Forward primer (5'-3')
TGTATCAACCAGTGTAGCTTATGGTG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
ATGGGCTCCAAGATCCGTTGTTC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 800
 Approximate temperature
55°C
  
PCR data   Exp. ID 11705
Forward primer (5'-3')
TGTATCAACCAGTGTAGCTTATGGTG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
ATGGGCTCCAAGATCCGTTGTTC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 800
 Approximate temperature
55°C
  
PCR data   Exp. ID 11706
Forward primer (5'-3')
TGTATCAACCAGTGTAGCTTATGGTG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
ATGGGCTCCAAGATCCGTTGTTC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 800
 Approximate temperature
55°C
  
Unigene blast matches for primers 
SGN-U223240
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]
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. 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]
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. 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_At5g12470  
 %2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D8668 marker 8668
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