Sol Genomics Network

SGN Marker C2_At3g62940

SGN-M8125
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	309811 (SGN) 126985 (CGN)	-	-	-
Lycopersicon Combined	Multiple	SGN-U214395	-	-	-
Solanum tuberosum	Single	SGN-U264154	-	-	-
Arabidopsis	Single	At3g62940 on TAIR	-	-	-

Mapped locations

Map: Tomato - Kazusa and SolCAP markers mapped to genome
Map version 105 (location: 49261)
Chromosome 4
Position 50.58 MB
Confidence uncalculated
Protocol CAPS

Tomato - Kazusa and SolCAP markers mapped to genome

Map: Kazusa F2-2000 genetic map
Map version 103 (location: 47197)
Chromosome 4
Position 35.62 cM
Confidence uncalculated
Protocol unknown

Kazusa F2-2000 genetic map

Map: Eggplant-COSII
Map version 63 (location: 42232)
Chromosome 11
Position 52.50 cM
Confidence F(LOD3)
Protocol dCAPS

Eggplant-COSII

PCR data Exp. ID 43798

Forward primer (5'-3')

ACCTGTGATAAGTAATCATGTTTACCG

Accessions and product sizes

Approximate temperature

55°C

Reverse primer (5'-3')

TCTGCTCTCTGGCTGCCTCTTGTTG

Digested band sizes (using unknown enzyme)

Mg⁺² concentration

Unknown

Enzymes

Map: Tomato-EXPEN 2000
Map version 52 (location: 38595)
Chromosome 4
Position 56.00 cM
Confidence I
Protocol CAPS

Tomato-EXPEN 2000

PCR data Exp. ID 39787

Forward primer (5'-3')

ACCCGCGAGGAGATGCTTTCTAGG

Accessions and product sizes

Solanum pennellii TA56

320

Solanum lycopersicum TA209

320

Approximate temperature

55°C

Reverse primer (5'-3')

TCTGCTCTCTGGCTGCCTCTTGTTG

Digested band sizes (using amplicon difference)

Solanum lycopersicum TA209

260

Solanum pennellii TA56

320

Mg⁺² concentration

1.5mM

Enzymes

Map: Arabidopsis COSII
Map version 44 (location: 26562)
Chromosome 3
Position 23.27 MB
Confidence uncalculated
Protocol CAPS

Arabidopsis COSII

Other PCR data

PCR data Exp. ID 11302
Forward primer (5'-3') ACCCGCGAGGAGATGCTTTCTAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCTGCTCTCTGGCTGCCTCTTGTTG	Enzymes
Accessions and product sizes Solanum pennellii LA716: 900	Approximate temperature 55°C

PCR data Exp. ID 11303
Forward primer (5'-3') ACCCGCGAGGAGATGCTTTCTAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCTGCTCTCTGGCTGCCTCTTGTTG	Enzymes
Accessions and product sizes Solanum lycopersicum LA925: 900	Approximate temperature 55°C

PCR data Exp. ID 11304
Forward primer (5'-3') ACCCGCGAGGAGATGCTTTCTAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCTGCTCTCTGGCTGCCTCTTGTTG	Enzymes
Accessions and product sizes Solanum pimpinellifolium LA1589: 900	Approximate temperature 55°C

PCR data Exp. ID 11305
Forward primer (5'-3') ACCCGCGAGGAGATGCTTTCTAGG	Digested band sizes (using DpnII) Solanum pennellii LA716: 400+500 Solanum lycopersicum LA925: 300+500	Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCTGCTCTCTGGCTGCCTCTTGTTG	Enzymes All possible enzymes for pennellii and and lycopersicum: DpnII,SsPI,TaqI,XbaI All possible enzymes for lycopersicum and pimpinellifolium: SsPI
Accessions and product sizes Solanum pennellii LA716: 900 Solanum lycopersicum LA925: 900	Approximate temperature 55°C