SGN Marker C2_At3g02220

SGN-M7590
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
CoffeeSingle303464 (SGN)
124455 (CGN)
---
Capsicum annuumSingleSGN-U201906---
Lycopersicon CombinedSingleSGN-U218644---
ArabidopsisSingleAt3g02220 on TAIR---
Mapped locations  
Map: Tobacco N. tomentosiformis   
Map version
91 (location: 46651)
Chromosome
2
Position
5.00 cM
Confidence
I(LOD2)
Protocol
CAPS


Tobacco N. tomentosiformis

Map: Pepper-COSII   
Map version
58 (location: 41400)
Chromosome
2
Position
121.60 cM
Confidence
I(LOD2)
Protocol
CAPS


Pepper-COSII

PCR data   Exp. ID 43376
Forward primer (5'-3')
TGTAGAGATCAAATTGATTGGAAGCG
Accessions and product sizes
Approximate temperature
53°C
Reverse primer (5'-3')
TATCCCGTTCTCGAGCATTCTTG
Digested band sizes (using unknown enzyme)
Mg+2 concentration
Unknown
   Enzymes
  

Map: Tomato-EXPEN 2000   
Map version
52 (location: 38415)
Chromosome
2
Position
109.50 cM
Confidence
F(LOD3)
Protocol
CAPS


Tomato-EXPEN 2000

PCR data   Exp. ID 39660
Forward primer (5'-3')
TGTAGAGATCAAATTGATTGGAAGCG
Accessions and product sizes
Solanum lycopersicum TA209
1650
Solanum pennellii TA56
1650
Approximate temperature
55°C
Reverse primer (5'-3')
TATCCCGTTCTCGAGCATTCTTG
Digested band sizes (using amplicon difference)
Solanum pennellii TA56
1500
Solanum lycopersicum TA209
1650
Mg+2 concentration
1.5mM
   Enzymes
  

Map: Arabidopsis COSII   
Map version
44 (location: 26014)
Chromosome
3
Position
0.41 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII
Other PCR data 
PCR data   Exp. ID 10926
Forward primer (5'-3')
TGTAGAGATCAAATTGATTGGAAGCG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TATCCCGTTCTCGAGCATTCTTG
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 920
Approximate temperature
55°C
  
PCR data   Exp. ID 10927
Forward primer (5'-3')
TGTAGAGATCAAATTGATTGGAAGCG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TATCCCGTTCTCGAGCATTCTTG
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 920
Approximate temperature
55°C
  
PCR data   Exp. ID 10928
Forward primer (5'-3')
TGTAGAGATCAAATTGATTGGAAGCG
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TATCCCGTTCTCGAGCATTCTTG
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 920
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]

Amplicon sequence alignment, FASTA
At3g02220F.cds.txt, plain text
Forward amplicon sequence for S. pimpinellifolium LA1589, AB1 chromatogram - [View]
Forward amplicon sequence for S. pimpinellifolium LA1589, 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

Genomic location of C2_At3g02220  
%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D7590 marker 7590
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