SGN Marker C2_At1g43620

SGN-M6802
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
Capsicum annuumSingleSGN-U197849---
Lycopersicon CombinedMultipleSGN-U220126---
Solanum tuberosumSingleSGN-U255695---
ArabidopsisSingleAt1g43620 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 25208)
Chromosome
1
Position
16.43 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41088
Forward primer (5'-3')
AAGTTAAACCTTCCTCCTATCGCC
Accessions and product sizes
Solanum lycopersicum TA209
1200
Solanum pennellii TA56
1200
Approximate temperature
55°C
Reverse primer (5'-3')
TGGGAAGTGAGAAATTGATCCGTGG
Digested band sizes (using amplicon difference)
Solanum pennellii TA56
1200
Solanum lycopersicum TA209
950
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 10191
Forward primer (5'-3')
AAGTTAAACCTTCCTCCTATCGCC
 
 
Mg+2 concentration
3mM
Reverse primer (5'-3')
TGGGAAGTGAGAAATTGATCCGTGG
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 100
 Approximate temperature
55°C
  
PCR data   Exp. ID 10192
Forward primer (5'-3')
AAGTTAAACCTTCCTCCTATCGCC
 
 
Mg+2 concentration
3mM
Reverse primer (5'-3')
TGGGAAGTGAGAAATTGATCCGTGG
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 100
 Approximate temperature
55°C
  
PCR data   Exp. ID 10193
Forward primer (5'-3')
AAGTTAAACCTTCCTCCTATCGCC
 
 
Mg+2 concentration
3mM
Reverse primer (5'-3')
TGGGAAGTGAGAAATTGATCCGTGG
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 100
 Approximate temperature
55°C
  
Unigene blast matches for primers 
SGN-U220126
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
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
Related Markers  

Related Genotyped Markers: These markers have been genotyped and share a name with this marker
Genomic location of C2_At1g43620  
 %2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D6802 marker 6802
User comments 
Please wait, checking for comments. (If comments do not show up, access them here)