SGN Marker C2_At3g55800

SGN-M8053
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
CoffeeSingle300523 (SGN)
125035 (CGN)
---
Capsicum annuumSingleSGN-U197442---
Lycopersicon CombinedSingleSGN-U215599---
Solanum tuberosumMultipleSGN-U246567---
ArabidopsisSingleAt3g55800 on TAIR---
Mapped locations  
Map: Tobacco N. tomentosiformis   
Map version
91 (location: 46704)
Chromosome
5
Position
13.70 cM
Confidence
CF(LOD3)
Protocol
CAPS


Tobacco N. tomentosiformis

Map: Pepper-COSII   
Map version
58 (location: 41449)
Chromosome
5
Position
74.50 cM
Confidence
I
Protocol
CAPS


Pepper-COSII

PCR data   Exp. ID 43425
Forward primer (5'-3')
ATGCTTGTTCTGAGGAAGTTCCTGAG
Accessions and product sizes
Approximate temperature
55°C
Reverse primer (5'-3')
AGTTCGTGTCCACAATACTAGAACCATC
Digested band sizes (using unknown enzyme)
Mg+2 concentration
Unknown
   Enzymes
  

Map: Tomato-EXPEN 2000   
Map version
52 (location: 38575)
Chromosome
5
Position
90.00 cM
Confidence
I(LOD2)
Protocol
CAPS


Tomato-EXPEN 2000

PCR data   Exp. ID 39771
Forward primer (5'-3')
TTTGAAATCAAGCTCATTATTTGG
Accessions and product sizes
Solanum lycopersicum TA209
350
Solanum pennellii TA56
350
Approximate temperature
55°C
Reverse primer (5'-3')
AGCTGTTCCTCCACAAGAAGCTG
Digested band sizes (using amplicon difference)
Solanum lycopersicum TA209
200
Solanum pennellii TA56
200
Mg+2 concentration
1.5mM
   Enzymes
  

Map: Arabidopsis COSII   
Map version
44 (location: 26489)
Chromosome
3
Position
20.72 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII
Other PCR data 
PCR data   Exp. ID 11267
Forward primer (5'-3')
TTTGAAATCAAGCTCATTATTTGG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
AGCTGTTCCTCCACAAGAAGCTG
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 350
Approximate temperature
55°C
  
PCR data   Exp. ID 11268
Forward primer (5'-3')
TTTGAAATCAAGCTCATTATTTGG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
AGCTGTTCCTCCACAAGAAGCTG
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 350
Approximate temperature
55°C
  
PCR data   Exp. ID 11269
Forward primer (5'-3')
TTTGAAATCAAGCTCATTATTTGG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
AGCTGTTCCTCCACAAGAAGCTG
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 350
Approximate temperature
55°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_At3g55800  
%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D8053 marker 8053
User comments 
Please wait, checking for comments. (If comments do not show up, access them here)