SGN Marker C2_At3g62580

SGN-M8121
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
CoffeeSingle302931 (SGN)
122119 (CGN)
---
Capsicum annuumSingleSGN-U197608---
Lycopersicon CombinedSingleSGN-U216487---
Solanum tuberosumSingleSGN-U244542---
ArabidopsisSingleAt3g62580 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 26558)
Chromosome
3
Position
23.16 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41520
Forward primer (5'-3')
TGCTCTATGGGTCACTTTCATCGG
Accessions and product sizes
Solanum pennellii TA56
400
Solanum lycopersicum TA209
400
Approximate temperature
50°C
Reverse primer (5'-3')
AAAGACAAAGAGATTGCTGAGGTTG
Digested band sizes (using unknown enzyme)
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 11299
Forward primer (5'-3')
TGCTCTATGGGTCACTTTCATCGG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
AAAGACAAAGAGATTGCTGAGGTTG
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 400
Approximate temperature
50°C
  
PCR data   Exp. ID 11300
Forward primer (5'-3')
TGCTCTATGGGTCACTTTCATCGG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
AAAGACAAAGAGATTGCTGAGGTTG
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 400
Approximate temperature
50°C
  
PCR data   Exp. ID 11301
Forward primer (5'-3')
TGCTCTATGGGTCACTTTCATCGG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
AAAGACAAAGAGATTGCTGAGGTTG
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 400
Approximate temperature
50°C
  
Unigene blast matches for primers 
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]

Genomic location of C2_At3g62580  
%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D8121 marker 8121
User comments 
Please wait, checking for comments. (If comments do not show up, access them here)