SGN Marker C2_At4g02680

SGN-M8170
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
CoffeeSingle299783 (SGN)
124705 (CGN)		---
Capsicum annuumSingleSGN-U203619---
Lycopersicon CombinedSingleSGN-U218240---
Solanum tuberosumSingleSGN-U257448---
ArabidopsisSingleAt4g02680 on TAIR---
Mapped locations  
Map: Tomato-EXPEN 2000   
Map version
52 (location: 38611)
Chromosome
9
Position
56.30 cM
Confidence
I
Protocol
CAPS


Tomato-EXPEN 2000

PCR data   Exp. ID 39801
Forward primer (5'-3')
ATGAGGAGTTTACAGTTGGCTCGC
Accessions and product sizes
Solanum lycopersicum TA209
300
Solanum pennellii TA56
300
Approximate temperature
55°C
Reverse primer (5'-3')
TCTGATCTCTTCTCGTAGGCAGATGC
Digested band sizes (using amplicon difference)
Solanum pennellii TA56
300
Solanum lycopersicum TA209
275
Mg+2 concentration
1.5mM
   Enzymes
  

Map: Arabidopsis COSII   
Map version
44 (location: 26607)
Chromosome
4
Position
1.18 MB
Confidence
uncalculated
Protocol
CAPS


Arabidopsis COSII
Other PCR data 
PCR data   Exp. ID 11341
Forward primer (5'-3')
ATGAGGAGTTTACAGTTGGCTCGC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TCTGATCTCTTCTCGTAGGCAGATGC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 900
 Approximate temperature
55°C
  
PCR data   Exp. ID 11342
Forward primer (5'-3')
ATGAGGAGTTTACAGTTGGCTCGC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TCTGATCTCTTCTCGTAGGCAGATGC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 900
 Approximate temperature
55°C
  
PCR data   Exp. ID 11343
Forward primer (5'-3')
ATGAGGAGTTTACAGTTGGCTCGC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TCTGATCTCTTCTCGTAGGCAGATGC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 900
 Approximate temperature
55°C
  
PCR data   Exp. ID 32431
Forward primer (5'-3')
ATGAGGAGTTTACAGTTGGCTCGC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TCTGATCTCTTCTCGTAGGCAGATGC
Enzymes
  
Accessions and product sizes
Solanum pennellii LA716: 900
 Approximate temperature
53°C
  
PCR data   Exp. ID 32432
Forward primer (5'-3')
ATGAGGAGTTTACAGTTGGCTCGC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TCTGATCTCTTCTCGTAGGCAGATGC
Enzymes
  
Accessions and product sizes
Solanum lycopersicum LA925: 900
 Approximate temperature
53°C
  
PCR data   Exp. ID 32433
Forward primer (5'-3')
ATGAGGAGTTTACAGTTGGCTCGC
 
 
Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TCTGATCTCTTCTCGTAGGCAGATGC
Enzymes
  
Accessions and product sizes
Solanum pimpinellifolium LA1589: 900
 Approximate temperature
53°C
  
PCR data   Exp. ID 32434
Forward primer (5'-3')
ATGAGGAGTTTACAGTTGGCTCGC
Digested band sizes (using HinfI)
Solanum pennellii LA716: 700
Solanum lycopersicum LA925: 400+500
 Mg+2 concentration
1.5mM
Reverse primer (5'-3')
TCTGATCTCTTCTCGTAGGCAGATGC
Enzymes
All possible enzymes for pennellii and and lycopersicum: BstZ17I,HaeIII,HinfI,Hpy188I
   
Accessions and product sizes
Solanum lycopersicum LA925: 900
Solanum pennellii LA716: 900
 Approximate temperature
53°C
  
Unigene blast matches for primers 
SGN-U218240
Universal primers for Asterid species 
No additional PCR data found.
Other COSII sequence data 
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
Amplicon sequence alignment, FASTA
At4g02680F.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
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
Amplicon sequence alignment, FASTA
At4g02680F.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
Related Markers  

Related Genotyped Markers: These markers have been genotyped and share a name with this marker
Genomic location of C2_At4g02680  
 %2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D8170 marker 8170
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