Sol Genomics Network

SGN Marker C2_At5g62390

SGN-M4732
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	299487 (SGN) 121931 (CGN)	-	-	-
Capsicum annuum	Single	SGN-U198216	-	-	-
Lycopersicon Combined	Single	SGN-U218274	-	-	-
Solanum tuberosum	Single	SGN-U244397	-	-	-
Arabidopsis	Single	At5g62390 on TAIR	-	-	-

Mapped locations

Map: Solanum michoacanum 2011
Map version 155 (location: 109248)
Chromosome 3
Position 25.70 cM
Confidence uncalculated
Protocol CAPS

Solanum michoacanum 2011

Map: Tomato - Kazusa and SolCAP markers mapped to genome
Map version 105 (location: 49307)
Chromosome 3
Position 47.47 MB
Confidence uncalculated
Protocol CAPS

Tomato - Kazusa and SolCAP markers mapped to genome

Map: Kazusa F2-2000 genetic map
Map version 103 (location: 47247)
Chromosome 3
Position 61.20 cM
Confidence uncalculated
Protocol unknown

Kazusa F2-2000 genetic map

Map: Pepper Capsicum
Map version 65 (location: 42692)
Chromosome 3
Position 109.30 cM
Confidence uncalculated
Protocol PCR

Pepper Capsicum

Map: Eggplant-COSII
Map version 63 (location: 42269)
Chromosome 3
Position 62.70 cM
Confidence F(LOD3)
Protocol CAPS

Eggplant-COSII

PCR data Exp. ID 43838

Forward primer (5'-3')

GCTAAGGGCTCTCTTCAACAACTTC

Accessions and product sizes

Approximate temperature

60°C

Reverse primer (5'-3')

TTGGGGGTCGATAACATCAAGC

Digested band sizes (using unknown enzyme)

Mg⁺² concentration

Unknown

Enzymes

Map: Pepper-COSII
Map version 58 (location: 41548)
Chromosome 3
Position 63.30 cM
Confidence I
Protocol CAPS

Pepper-COSII

PCR data Exp. ID 43524

Forward primer (5'-3')

TGCTACTAACTGTTGATGCCATTGAG

Accessions and product sizes

Approximate temperature

55°C

Reverse primer (5'-3')

TTGGGGGTCGATAACATCAAGC

Digested band sizes (using unknown enzyme)

Mg⁺² concentration

Unknown

Enzymes

Map: Tomato-EXPEN 2000
Map version 52 (location: 38910)
Chromosome 3
Position 75.60 cM
Confidence I(LOD2)
Protocol CAPS

Tomato-EXPEN 2000

PCR data Exp. ID 40012

Forward primer (5'-3')

TGCTACTAACTGTTGATGCCATTGAG

Accessions and product sizes

Solanum lycopersicum TA209

350

Solanum pennellii TA56

350

Approximate temperature

55°C

Reverse primer (5'-3')

TTGGGGGTCGATAACATCAAGC

Digested band sizes (using amplicon difference)

Solanum pennellii TA56

250

Solanum lycopersicum TA209

350

Mg⁺² concentration

1.5mM

Enzymes

Map: Arabidopsis COSII
Map version 44 (location: 27634)
Chromosome 5
Position 25.07 MB
Confidence uncalculated
Protocol CAPS

Arabidopsis COSII

Other PCR data

PCR data Exp. ID 12082
Forward primer (5'-3') TGCTACTAACTGTTGATGCCATTGAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTGGGGGTCGATAACATCAAGC	Enzymes
Accessions and product sizes Solanum pennellii LA716: 1200	Approximate temperature 55°C

PCR data Exp. ID 12083
Forward primer (5'-3') TGCTACTAACTGTTGATGCCATTGAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTGGGGGTCGATAACATCAAGC	Enzymes
Accessions and product sizes Solanum lycopersicum LA925: 1200	Approximate temperature 55°C

PCR data Exp. ID 12084
Forward primer (5'-3') TGCTACTAACTGTTGATGCCATTGAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTGGGGGTCGATAACATCAAGC	Enzymes
Accessions and product sizes Solanum pimpinellifolium LA1589: 1200	Approximate temperature 55°C

PCR data Exp. ID 12345
Forward primer (5'-3') TGCTCTGAGAGAACTGGCCATTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCGAACAACTTGAGCCACACCAGC	Enzymes
Accessions and product sizes Solanum lycopersicum LA925: 1300	Approximate temperature 55°C

PCR data Exp. ID 12346
Forward primer (5'-3') TGCTCTGAGAGAACTGGCCATTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCGAACAACTTGAGCCACACCAGC	Enzymes
Accessions and product sizes Nicotiana tomentosiformis TA3349: 1300	Approximate temperature 55°C

PCR data Exp. ID 12347
Forward primer (5'-3') TGCTCTGAGAGAACTGGCCATTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCGAACAACTTGAGCCACACCAGC	Enzymes
Accessions and product sizes Physalis TA1367: 1200	Approximate temperature 55°C

PCR data Exp. ID 12348
Forward primer (5'-3') TGCTCTGAGAGAACTGGCCATTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCGAACAACTTGAGCCACACCAGC	Enzymes
Accessions and product sizes Petunia axillaris subsp. parodii TA3310: 580	Approximate temperature 55°C

PCR data Exp. ID 12349
Forward primer (5'-3') TGCTCTGAGAGAACTGGCCATTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCGAACAACTTGAGCCACACCAGC	Enzymes
Accessions and product sizes Petunia x hybrida TA3311: 580	Approximate temperature 55°C

PCR data Exp. ID 12350
Forward primer (5'-3') TGCTCTGAGAGAACTGGCCATTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCGAACAACTTGAGCCACACCAGC	Enzymes
Accessions and product sizes Coffea canephora BP409: 500+900	Approximate temperature 55°C

PCR data Exp. ID 13933
Forward primer (5'-3') TGCTACTAACTGTTGATGCCATTGAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTGGGGGTCGATAACATCAAGC	Enzymes
Accessions and product sizes Solanum melongena TA2986: 1000	Approximate temperature 55°C

PCR data Exp. ID 13934
Forward primer (5'-3') TGCTACTAACTGTTGATGCCATTGAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTGGGGGTCGATAACATCAAGC	Enzymes
Accessions and product sizes Capsicum annuum TA3428: 1250	Approximate temperature 55°C

PCR data Exp. ID 13935
Forward primer (5'-3') TGCTACTAACTGTTGATGCCATTGAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTGGGGGTCGATAACATCAAGC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3346: 1250	Approximate temperature 55°C

PCR data Exp. ID 13936
Forward primer (5'-3') TGCTACTAACTGTTGATGCCATTGAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTGGGGGTCGATAACATCAAGC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3347: 1250	Approximate temperature 55°C

PCR data Exp. ID 13937
Forward primer (5'-3') TGCTACTAACTGTTGATGCCATTGAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTGGGGGTCGATAACATCAAGC	Enzymes
Accessions and product sizes Nicotiana tomentosiformis TA3349: 1200	Approximate temperature 55°C

PCR data Exp. ID 13938
Forward primer (5'-3') TGCTACTAACTGTTGATGCCATTGAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTGGGGGTCGATAACATCAAGC	Enzymes
Accessions and product sizes Nicotiana otophora TA3350: 1200	Approximate temperature 55°C

PCR data Exp. ID 13939
Forward primer (5'-3') TGCTACTAACTGTTGATGCCATTGAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTGGGGGTCGATAACATCAAGC	Enzymes
Accessions and product sizes Physalis TA1367: 1100	Approximate temperature 55°C

PCR data Exp. ID 13940
Forward primer (5'-3') TGCTACTAACTGTTGATGCCATTGAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTGGGGGTCGATAACATCAAGC	Enzymes
Accessions and product sizes Petunia axillaris subsp. parodii TA3310: 1150	Approximate temperature 55°C

PCR data Exp. ID 13941
Forward primer (5'-3') TGCTACTAACTGTTGATGCCATTGAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTGGGGGTCGATAACATCAAGC	Enzymes
Accessions and product sizes Petunia x hybrida TA3311: 1100	Approximate temperature 55°C

PCR data Exp. ID 13942
Forward primer (5'-3') TGCTACTAACTGTTGATGCCATTGAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTGGGGGTCGATAACATCAAGC	Enzymes
Accessions and product sizes Coffea canephora BP409: 900	Approximate temperature 55°C

PCR data Exp. ID 33297
Forward primer (5'-3') TGCTACTAACTGTTGATGCCATTGAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTGGGGGTCGATAACATCAAGC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3346: 1250	Approximate temperature 55°C

PCR data Exp. ID 33298
Forward primer (5'-3') TGCTACTAACTGTTGATGCCATTGAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTGGGGGTCGATAACATCAAGC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3347: 1250	Approximate temperature 55°C

PCR data Exp. ID 33299
Forward primer (5'-3') TGCTACTAACTGTTGATGCCATTGAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTGGGGGTCGATAACATCAAGC	Enzymes
Accessions and product sizes Nicotiana tomentosiformis TA3349: 1200	Approximate temperature 55°C

PCR data Exp. ID 33300
Forward primer (5'-3') TGCTACTAACTGTTGATGCCATTGAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTGGGGGTCGATAACATCAAGC	Enzymes
Accessions and product sizes Nicotiana otophora TA3350: 1200	Approximate temperature 55°C

PCR data Exp. ID 33367
Forward primer (5'-3') TGCTCTGAGAGAACTGGCCATTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCGAACAACTTGAGCCACACCAGC	Enzymes
Accessions and product sizes Nicotiana tomentosiformis TA3349: 1300	Approximate temperature 55°C

PCR data Exp. ID 12085
Forward primer (5'-3') TGCTACTAACTGTTGATGCCATTGAG	Digested band sizes (using EcoRV) Solanum pennellii LA716: 1200 Solanum lycopersicum LA925: 950	Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTGGGGGTCGATAACATCAAGC	Enzymes All possible enzymes for pennellii and and lycopersicum: AluI, EcoRV, HaeIII, HinfI, DpnII All possible enzymes for lycopersicum and pimpinellifolium: AluI, DpnII
Accessions and product sizes Solanum lycopersicum LA925: 1200 Solanum pennellii LA716: 1200	Approximate temperature 55°C