Sol Genomics Network

SGN Marker C2_At3g60830

SGN-M8107
COSII markers are Conserved Ortholog Set II - orthologs between many asterid species

Synonyms

None

Locus associations

None

Orthologs in this COSII group

Species	Copies	Sequence ID	CDS/Edited sequence	Peptide sequence	Predicted introns
Coffee	Single	302241 (SGN) 122924 (CGN)	-	-	-
Lycopersicon Combined	Single	SGN-U219505	-	-	-
Solanum tuberosum	Multiple	SGN-U258839	-	-	-
Arabidopsis	Single	At3g60830 on TAIR	-	-	-

Mapped locations

Map: Tomato-EXPIMP 2009
Map version 126 (location: 53428)
Chromosome 11
Position 14.75 cM
Confidence uncalculated
Protocol CAPS

Tomato-EXPIMP 2009

Map: Pepper-COSII
Map version 58 (location: 41454)
Chromosome 12
Position 27.40 cM
Confidence F(LOD3)
Protocol CAPS

Pepper-COSII

PCR data Exp. ID 43430

Forward primer (5'-3')

ATGCTGGTTCTAAATTTCTCAAAGC

Accessions and product sizes

Approximate temperature

60°C

Reverse primer (5'-3')

ATATGCGTCCAACTGCATAAAGCG

Digested band sizes (using unknown enzyme)

Mg⁺² concentration

Unknown

Enzymes

Map: Tomato-EXPEN 2000
Map version 52 (location: 38589)
Chromosome 11
Position 21.00 cM
Confidence I(LOD2)
Protocol CAPS

Tomato-EXPEN 2000

PCR data Exp. ID 39783

Forward primer (5'-3')

ATGCTGGTTCTAAATTTCTCAAAGC

Accessions and product sizes

Solanum pennellii TA56

530

Solanum lycopersicum TA209

500

Approximate temperature

55°C

Reverse primer (5'-3')

ATATGCGTCCAACTGCATAAAGCG

Digested band sizes (using amplicon difference)

Solanum lycopersicum TA209

500

Solanum pennellii TA56

530

Mg⁺² concentration

1.5mM

Enzymes

Map: Arabidopsis COSII
Map version 44 (location: 26544)
Chromosome 3
Position 22.49 MB
Confidence uncalculated
Protocol CAPS

Arabidopsis COSII

Other PCR data

PCR data Exp. ID 11288
Forward primer (5'-3') ATGCTGGTTCTAAATTTCTCAAAGC		Mg⁺² concentration 3mM
Reverse primer (5'-3') ATATGCGTCCAACTGCATAAAGCG	Enzymes
Accessions and product sizes Solanum pennellii LA716: 2000	Approximate temperature 55°C

PCR data Exp. ID 11289
Forward primer (5'-3') ATGCTGGTTCTAAATTTCTCAAAGC		Mg⁺² concentration 3mM
Reverse primer (5'-3') ATATGCGTCCAACTGCATAAAGCG	Enzymes
Accessions and product sizes Solanum lycopersicum LA925: 2000	Approximate temperature 55°C

PCR data Exp. ID 11290
Forward primer (5'-3') ATGCTGGTTCTAAATTTCTCAAAGC		Mg⁺² concentration 3mM
Reverse primer (5'-3') ATATGCGTCCAACTGCATAAAGCG	Enzymes
Accessions and product sizes Solanum pimpinellifolium LA1589: 2000	Approximate temperature 55°C

PCR data Exp. ID 11291
Forward primer (5'-3') ATGCTGGTTCTAAATTTCTCAAAGC	Digested band sizes (using HaeIII) Solanum pennellii LA716: 2000 Solanum lycopersicum LA925: 900+1100	Mg⁺² concentration 3mM
Reverse primer (5'-3') ATATGCGTCCAACTGCATAAAGCG	Enzymes All possible enzymes for pennellii and and lycopersicum: AluI,ApaI,ApoI,AseI,AvaII,BanII,BslI,BsoBI,BstNI,DraI,EcoO109I,HaeIII,HindIII,HinfI,Hpy188I,NciI,Sau96I,ScrFI,XmnI All possible enzymes for lycopersicum and pimpinellifolium: AluI,ApaI,ApoI,AseI,AvaII,BanII,BsiHKAI,BslI,BsoBI,BstNI,DraI,EcoO109I,HaeIII,HindIII,Hpy188I,MspI,NciI,SacI,Sau96I,ScrFI,XmnI
Accessions and product sizes Solanum pennellii LA716: 2000 Solanum lycopersicum LA925: 2000	Approximate temperature 55°C