Sol Genomics Network

SGN Marker C2_At4g00560

SGN-M8140
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	304798 (SGN) 121715 (CGN)	-	-	-
Lycopersicon Combined	Multiple	SGN-U219946	-	-	-
Solanum tuberosum	Single	SGN-U248354	-	-	-
Arabidopsis	Single	At4g00560 on TAIR	-	-	-

Mapped locations

Map: Pepper-COSII
Map version 58 (location: 41457)
Chromosome 1
Position 171.60 cM
Confidence I(LOD2)
Protocol PCR

Pepper-COSII

PCR data Exp. ID 43433

Forward primer (5'-3')

AGCGCCTACTGGAAGCCATTCCTC

Accessions and product sizes

Approximate temperature

63°C

Reverse primer (5'-3')

ACAGAAAGTGCAGCACAATTAACCAC

Digested band sizes (using unknown enzyme)

Mg⁺² concentration

Unknown

Enzymes

Map: Tomato-EXPEN 2000
Map version 52 (location: 38602)
Chromosome 1
Position 69.50 cM
Confidence I
Protocol CAPS

Tomato-EXPEN 2000

PCR data Exp. ID 39793

Forward primer (5'-3')

AGCGCCTACTGGAAGCCATTCCTC

Accessions and product sizes

Solanum lycopersicum TA209

2000

Solanum pennellii TA56

2000

Approximate temperature

55°C

Reverse primer (5'-3')

ACAGAAAGTGCAGCACAATTAACCAC

Digested band sizes (using amplicon difference)

Solanum pennellii TA56

2000

Solanum lycopersicum TA209

1100+900

Mg⁺² concentration

1.5mM

Enzymes

Map: Arabidopsis COSII
Map version 44 (location: 26577)
Chromosome 4
Position 0.24 MB
Confidence uncalculated
Protocol CAPS

Arabidopsis COSII

Other PCR data

PCR data Exp. ID 11321
Forward primer (5'-3') AGCGCCTACTGGAAGCCATTCCTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACAGAAAGTGCAGCACAATTAACCAC	Enzymes
Accessions and product sizes Solanum pennellii LA716: 750	Approximate temperature 55°C

PCR data Exp. ID 11322
Forward primer (5'-3') AGCGCCTACTGGAAGCCATTCCTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACAGAAAGTGCAGCACAATTAACCAC	Enzymes
Accessions and product sizes Solanum lycopersicum LA925: 750	Approximate temperature 55°C

PCR data Exp. ID 11323
Forward primer (5'-3') AGCGCCTACTGGAAGCCATTCCTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACAGAAAGTGCAGCACAATTAACCAC	Enzymes
Accessions and product sizes Solanum pimpinellifolium LA1589: 750	Approximate temperature 55°C

PCR data Exp. ID 11324
Forward primer (5'-3') AGCGCCTACTGGAAGCCATTCCTC	Digested band sizes (using BslI) Solanum pennellii LA716: 600 Solanum lycopersicum LA925: 750	Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACAGAAAGTGCAGCACAATTAACCAC	Enzymes All possible enzymes for pennellii and and lycopersicum: BslI All possible enzymes for lycopersicum and pimpinellifolium: AluI,TspRI
Accessions and product sizes Solanum lycopersicum LA925: 750 Solanum pennellii LA716: 750	Approximate temperature 55°C