SGN Marker C2_At2g38000

SGN-M7436
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
CoffeeSingle303732 (SGN)
120067 (CGN)		---
Capsicum annuumMultipleSGN-U197277---
Lycopersicon CombinedMultipleSGN-U223604---
Solanum tuberosumSingleSGN-U254489---
ArabidopsisSingleAt2g38000 on TAIR---
Mapped locations  
Map: Arabidopsis COSII   
Map version
44 (location: 25856)
Chromosome
2
Position
15.91 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII

PCR data   Exp. ID 41280
Forward primer (5'-3')
AACAAGGGATTGTTTATCAGGGTGG
Accessions and product sizes
Solanum lycopersicum TA209
200
Solanum pennellii TA56
200
Approximate temperature
55°C
Reverse primer (5'-3')
TCAATTGCATGAATCTTCCAGGTCC
Digested band sizes (using unknown enzyme)
Mg+2 concentration
1.5mM
   Enzymes
  
Other PCR data 
PCR data   Exp. ID 10812
Forward primer (5'-3')
AACAAGGGATTGTTTATCAGGGTGG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TCAATTGCATGAATCTTCCAGGTCC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 530
 Approximate temperature
55°C
  
PCR data   Exp. ID 10813
Forward primer (5'-3')
AACAAGGGATTGTTTATCAGGGTGG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TCAATTGCATGAATCTTCCAGGTCC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 530
 Approximate temperature
55°C
  
PCR data   Exp. ID 10814
Forward primer (5'-3')
AACAAGGGATTGTTTATCAGGGTGG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TCAATTGCATGAATCTTCCAGGTCC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 530
 Approximate temperature
55°C
  
Unigene blast matches for primers 
SGN-U218727
SGN-U279765
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]
Amplicon sequence alignment, FASTA
At2g38000F.cds.txt, plain text
Forward amplicon sequence for S. lycopersicum TA209, AB1 chromatogram - [View]
Forward amplicon sequence for S. lycopersicum TA209, plain text
Forward amplicon sequence for S. pennellii TA56, AB1 chromatogram - [View]
Forward amplicon sequence for S. pennellii TA56, plain text
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]
Amplicon sequence alignment, FASTA
At2g38000F.cds.txt, plain text
Forward amplicon sequence for S. lycopersicum TA209, AB1 chromatogram - [View]
Forward amplicon sequence for S. lycopersicum TA209, plain text
Forward amplicon sequence for S. pennellii TA56, AB1 chromatogram - [View]
Forward amplicon sequence for S. pennellii TA56, plain text
Related Markers  

Related Genotyped Markers: These markers have been genotyped and share a name with this marker
Genomic location of C2_At2g38000  
 %2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D7436 marker 7436
User comments 
Please wait, checking for comments. (If comments do not show up, access them here)