Sol Genomics Network

SGN Marker C2_At1g42990

SGN-M6799
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
Capsicum annuum	Single	SGN-U197083	-	-	-
Lycopersicon Combined	Single	SGN-U213210	-	-	-
Solanum tuberosum	Single	SGN-U245078	-	-	-
Arabidopsis	Single	At1g42990 on TAIR	-	-	-

Mapped locations

Map: Eggplant-RAD 2012
Map version 174 (location: 132177)
Chromosome 4
Position 119.48 cM
Confidence uncalculated
Protocol CAPS

Eggplant-RAD 2012

Map: Tobacco N. tomentosiformis
Map version 91 (location: 46584)
Chromosome 4
Position 94.20 cM
Confidence F(LOD3)
Protocol CAPS

Tobacco N. tomentosiformis

Map: Pepper-COSII
Map version 58 (location: 41327)
Chromosome 4
Position 147.20 cM
Confidence I
Protocol CAPS

Pepper-COSII

PCR data Exp. ID 43303

Forward primer (5'-3')

ATGACCCCGTCGATAAGAAGCG

Accessions and product sizes

Approximate temperature

55°C

Reverse primer (5'-3')

ACCTCACAGCTGCATCTCTATTCCTC

Digested band sizes (using unknown enzyme)

Mg⁺² concentration

Unknown

Enzymes

Map: Tomato-EXPEN 2000
Map version 52 (location: 38176)
Chromosome 4
Position 135.60 cM
Confidence I
Protocol CAPS

Tomato-EXPEN 2000

PCR data Exp. ID 39457

Forward primer (5'-3')

ATGACCCCGTCGATAAGAAGCG

Accessions and product sizes

Solanum lycopersicum TA209

250

Solanum pennellii TA56

250

Approximate temperature

55°C

Reverse primer (5'-3')

ACCTCACAGCTGCATCTCTATTCCTC

Digested band sizes (using amplicon difference)

Solanum pennellii TA56

250

Solanum lycopersicum TA209

100+150

Mg⁺² concentration

1.5mM

Enzymes

Map: Arabidopsis COSII
Map version 44 (location: 25205)
Chromosome 1
Position 16.14 MB
Confidence uncalculated
Protocol CAPS

Arabidopsis COSII

Other PCR data

PCR data Exp. ID 10187
Forward primer (5'-3') ATGACCCCGTCGATAAGAAGCG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACCTCACAGCTGCATCTCTATTCCTC	Enzymes
Accessions and product sizes Solanum pennellii LA716: 900	Approximate temperature 55°C

PCR data Exp. ID 10188
Forward primer (5'-3') ATGACCCCGTCGATAAGAAGCG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACCTCACAGCTGCATCTCTATTCCTC	Enzymes
Accessions and product sizes Solanum lycopersicum LA925: 1000	Approximate temperature 55°C

PCR data Exp. ID 10189
Forward primer (5'-3') ATGACCCCGTCGATAAGAAGCG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACCTCACAGCTGCATCTCTATTCCTC	Enzymes
Accessions and product sizes Solanum pimpinellifolium LA1589: 1000	Approximate temperature 55°C

PCR data Exp. ID 12193
Forward primer (5'-3') ACATCAACTGGGACGATGTAGATCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') AGAGCACGGCAGACTCCTGCTTG	Enzymes
Accessions and product sizes Solanum lycopersicum LA925: 1400	Approximate temperature 55°C

PCR data Exp. ID 12194
Forward primer (5'-3') ACATCAACTGGGACGATGTAGATCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') AGAGCACGGCAGACTCCTGCTTG	Enzymes
Accessions and product sizes Solanum melongena TA2986: 700+1300	Approximate temperature 55°C

PCR data Exp. ID 12195
Forward primer (5'-3') ACATCAACTGGGACGATGTAGATCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') AGAGCACGGCAGACTCCTGCTTG	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3347: 1650	Approximate temperature 55°C

PCR data Exp. ID 12196
Forward primer (5'-3') ACATCAACTGGGACGATGTAGATCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') AGAGCACGGCAGACTCCTGCTTG	Enzymes
Accessions and product sizes Nicotiana tomentosiformis TA3349: 1650	Approximate temperature 55°C

PCR data Exp. ID 12197
Forward primer (5'-3') ACATCAACTGGGACGATGTAGATCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') AGAGCACGGCAGACTCCTGCTTG	Enzymes
Accessions and product sizes Nicotiana otophora TA3350: 400+1650	Approximate temperature 55°C

PCR data Exp. ID 12198
Forward primer (5'-3') ACATCAACTGGGACGATGTAGATCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') AGAGCACGGCAGACTCCTGCTTG	Enzymes
Accessions and product sizes Physalis TA1367: 300+1300	Approximate temperature 55°C

PCR data Exp. ID 12199
Forward primer (5'-3') ACATCAACTGGGACGATGTAGATCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') AGAGCACGGCAGACTCCTGCTTG	Enzymes
Accessions and product sizes Petunia axillaris subsp. parodii TA3310: 850+1300	Approximate temperature 55°C

PCR data Exp. ID 12200
Forward primer (5'-3') ACATCAACTGGGACGATGTAGATCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') AGAGCACGGCAGACTCCTGCTTG	Enzymes
Accessions and product sizes Coffea canephora BP409: 1300	Approximate temperature 55°C

PCR data Exp. ID 12597
Forward primer (5'-3') ATGACCCCGTCGATAAGAAGCG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACCTCACAGCTGCATCTCTATTCCTC	Enzymes
Accessions and product sizes Solanum tuberosum TA3427: 880	Approximate temperature 55°C

PCR data Exp. ID 12598
Forward primer (5'-3') ATGACCCCGTCGATAAGAAGCG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACCTCACAGCTGCATCTCTATTCCTC	Enzymes
Accessions and product sizes Solanum melongena TA2986: 900	Approximate temperature 55°C

PCR data Exp. ID 12599
Forward primer (5'-3') ATGACCCCGTCGATAAGAAGCG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACCTCACAGCTGCATCTCTATTCCTC	Enzymes
Accessions and product sizes Capsicum annuum TA3428: 950	Approximate temperature 55°C

PCR data Exp. ID 12600
Forward primer (5'-3') ATGACCCCGTCGATAAGAAGCG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACCTCACAGCTGCATCTCTATTCCTC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3346: 950	Approximate temperature 55°C

PCR data Exp. ID 12601
Forward primer (5'-3') ATGACCCCGTCGATAAGAAGCG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACCTCACAGCTGCATCTCTATTCCTC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3347: 900+1200	Approximate temperature 55°C

PCR data Exp. ID 12602
Forward primer (5'-3') ATGACCCCGTCGATAAGAAGCG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACCTCACAGCTGCATCTCTATTCCTC	Enzymes
Accessions and product sizes Nicotiana tomentosiformis TA3349: 850+1200	Approximate temperature 55°C

PCR data Exp. ID 12603
Forward primer (5'-3') ATGACCCCGTCGATAAGAAGCG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACCTCACAGCTGCATCTCTATTCCTC	Enzymes
Accessions and product sizes Nicotiana otophora TA3350: 1200	Approximate temperature 55°C

PCR data Exp. ID 12604
Forward primer (5'-3') ATGACCCCGTCGATAAGAAGCG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACCTCACAGCTGCATCTCTATTCCTC	Enzymes
Accessions and product sizes Physalis TA1367: 850	Approximate temperature 55°C

PCR data Exp. ID 12605
Forward primer (5'-3') ATGACCCCGTCGATAAGAAGCG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACCTCACAGCTGCATCTCTATTCCTC	Enzymes
Accessions and product sizes Petunia axillaris TA3309: 1000	Approximate temperature 55°C

PCR data Exp. ID 12606
Forward primer (5'-3') ATGACCCCGTCGATAAGAAGCG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACCTCACAGCTGCATCTCTATTCCTC	Enzymes
Accessions and product sizes Petunia axillaris subsp. parodii TA3310: 800	Approximate temperature 55°C

PCR data Exp. ID 12607
Forward primer (5'-3') ATGACCCCGTCGATAAGAAGCG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACCTCACAGCTGCATCTCTATTCCTC	Enzymes
Accessions and product sizes Petunia x hybrida TA3311: 1000	Approximate temperature 55°C

PCR data Exp. ID 32758
Forward primer (5'-3') ATGACCCCGTCGATAAGAAGCG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACCTCACAGCTGCATCTCTATTCCTC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3346: 950	Approximate temperature 55°C

PCR data Exp. ID 32759
Forward primer (5'-3') ATGACCCCGTCGATAAGAAGCG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACCTCACAGCTGCATCTCTATTCCTC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3347: 900+1200	Approximate temperature 55°C

PCR data Exp. ID 32760
Forward primer (5'-3') ATGACCCCGTCGATAAGAAGCG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACCTCACAGCTGCATCTCTATTCCTC	Enzymes
Accessions and product sizes Nicotiana tomentosiformis TA3349: 850+1200	Approximate temperature 55°C

PCR data Exp. ID 32761
Forward primer (5'-3') ATGACCCCGTCGATAAGAAGCG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACCTCACAGCTGCATCTCTATTCCTC	Enzymes
Accessions and product sizes Nicotiana otophora TA3350: 1200	Approximate temperature 55°C

PCR data Exp. ID 33317
Forward primer (5'-3') ACATCAACTGGGACGATGTAGATCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') AGAGCACGGCAGACTCCTGCTTG	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3347: 1650	Approximate temperature 55°C

PCR data Exp. ID 33318
Forward primer (5'-3') ACATCAACTGGGACGATGTAGATCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') AGAGCACGGCAGACTCCTGCTTG	Enzymes
Accessions and product sizes Nicotiana tomentosiformis TA3349: 1650	Approximate temperature 55°C

PCR data Exp. ID 33319
Forward primer (5'-3') ACATCAACTGGGACGATGTAGATCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') AGAGCACGGCAGACTCCTGCTTG	Enzymes
Accessions and product sizes Nicotiana otophora TA3350: 400+1650	Approximate temperature 55°C

PCR data Exp. ID 10190
Forward primer (5'-3') ATGACCCCGTCGATAAGAAGCG	Digested band sizes (using amplicon difference) Solanum lycopersicum LA925: 1000 Solanum pennellii LA716: 900	Mg⁺² concentration 1.5mM
Reverse primer (5'-3') ACCTCACAGCTGCATCTCTATTCCTC	Enzymes All possible enzymes for pennellii and and lycopersicum: amplicon difference
Accessions and product sizes Solanum pennellii LA716: 900 Solanum lycopersicum LA925: 1000	Approximate temperature 55°C

Unigene blast matches for primers

SGN-U213210

Universal primers for Asterid species

No additional PCR data found.

Other COSII sequence data

BLASTX result of original unigene sequences against Arabidopsis protein database

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

BLASTX result of original unigene sequences against Arabidopsis protein database

Related Markers

Related Genotyped Markers: These markers have been genotyped and share a name with this marker

Genomic location of C2_At1g42990

%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D6799 marker 6799

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Accessions	Seedlots
Accessions		Breeding Program	Seedlot Name	Contents	Seedlot Location	Count	Weight(g)

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