SGN Marker C2_At1g79440

SGN-M7110
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
CoffeeSingle303256 (SGN)
123120 (CGN)
---
Capsicum annuumSingleSGN-U200920---
Solanum tuberosumSingleSGN-U244244---
ArabidopsisSingleAt1g79440 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 25524)
Chromosome
1
Position
29.89 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41181
Forward primer (5'-3')
ATCATTCCATCACCATTAGCAGATAG
Accessions and product sizes
Solanum lycopersicum TA209
1800
Solanum pennellii TA56
1800
Approximate temperature
55°C
Reverse primer (5'-3')
TGGGGTAATTGCACCAACAACAC
Digested band sizes (using amplicon difference)
Solanum lycopersicum TA209
500+700
Solanum pennellii TA56
650
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 10472
Forward primer (5'-3')
ATCATTCCATCACCATTAGCAGATAG
 
 
Mg+2 concentration
3mM
Reverse primer (5'-3')
TGGGGTAATTGCACCAACAACAC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 100
Approximate temperature
55°C
  
PCR data   Exp. ID 10473
Forward primer (5'-3')
ATCATTCCATCACCATTAGCAGATAG
 
 
Mg+2 concentration
3mM
Reverse primer (5'-3')
TGGGGTAATTGCACCAACAACAC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 100
Approximate temperature
55°C
  
PCR data   Exp. ID 10474
Forward primer (5'-3')
ATCATTCCATCACCATTAGCAGATAG
 
 
Mg+2 concentration
3mM
Reverse primer (5'-3')
TGGGGTAATTGCACCAACAACAC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 100
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_At1g79440  
%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D7110 marker 7110
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