SGN Marker C2_At1g54780

SGN-M6875
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
CoffeeSingle308702 (SGN)
130659 (CGN)		---
Capsicum annuumSingleSGN-U203202---
Lycopersicon CombinedMultipleSGN-U216356---
Solanum tuberosumSingleSGN-U250570---
ArabidopsisSingleAt1g54780 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 25284)
Chromosome
1
Position
20.44 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41109
Forward primer (5'-3')
TTCCATATTAATTTCATCACTGTCCG
Accessions and product sizes
Solanum pennellii TA56
250
Solanum lycopersicum TA209
250
Approximate temperature
55°C
Reverse primer (5'-3')
TGATCAGCATACTCAAAAGCATCAGC
Digested band sizes (using unknown enzyme)
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 10272
Forward primer (5'-3')
TTCCATATTAATTTCATCACTGTCCG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGATCAGCATACTCAAAAGCATCAGC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 250
 Approximate temperature
55°C
  
PCR data   Exp. ID 10273
Forward primer (5'-3')
TTCCATATTAATTTCATCACTGTCCG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGATCAGCATACTCAAAAGCATCAGC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 250
 Approximate temperature
55°C
  
PCR data   Exp. ID 10274
Forward primer (5'-3')
TTCCATATTAATTTCATCACTGTCCG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TGATCAGCATACTCAAAAGCATCAGC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 250
 Approximate temperature
55°C
  
Unigene blast matches for primers 
SGN-U216356
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]
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]
Related Markers  

Related Genotyped Markers: These markers have been genotyped and share a name with this marker
Genomic location of C2_At1g54780  
 %2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D6875 marker 6875
User comments 
Please wait, checking for comments. (If comments do not show up, access them here)