Sol Genomics Network

SGN Marker C2_At4g33250

SGN-M4718
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	310651 (SGN) 132181 (CGN)	-	-	-
Capsicum annuum	Single	SGN-U198940	-	-	-
Lycopersicon Combined	Single	SGN-U216333	-	-	-
Solanum tuberosum	Multiple	SGN-U245082	-	-	-
Arabidopsis	Single	At4g33250 on TAIR	-	-	-

Mapped locations

Map: Tomato - Kazusa and SolCAP markers mapped to genome
Map version 105 (location: 49281)
Chromosome 7
Position 53.36 MB
Confidence uncalculated
Protocol CAPS

Tomato - Kazusa and SolCAP markers mapped to genome

Map: Kazusa F2-2000 genetic map
Map version 103 (location: 47221)
Chromosome 7
Position 25.50 cM
Confidence uncalculated
Protocol unknown

Kazusa F2-2000 genetic map

Map: Pepper-COSII
Map version 58 (location: 41493)
Chromosome 7
Position 49.10 cM
Confidence I(LOD2)
Protocol CAPS

Pepper-COSII

PCR data Exp. ID 43469

Forward primer (5'-3')

TCCAGATTACAGCCTGTGTCTCTTC

Accessions and product sizes

Approximate temperature

55°C

Reverse primer (5'-3')

TGGCGGCTCTTTGCAGCTTCATC

Digested band sizes (using unknown enzyme)

Mg⁺² concentration

Unknown

Enzymes

Map: Tomato-EXPEN 2000
Map version 52 (location: 38703)
Chromosome 7
Position 29.00 cM
Confidence I
Protocol CAPS

Tomato-EXPEN 2000

PCR data Exp. ID 39875

Forward primer (5'-3')

TCCAGATTACAGCCTGTGTCTCTTC

Accessions and product sizes

Solanum pennellii TA56

1450

Solanum lycopersicum TA209

1400

Approximate temperature

55°C

Reverse primer (5'-3')

TGGCGGCTCTTTGCAGCTTCATC

Digested band sizes (using amplicon difference)

Solanum lycopersicum TA209

1400

Solanum pennellii TA56

1450

Mg⁺² concentration

1.5mM

Enzymes

Map: Arabidopsis COSII
Map version 44 (location: 26893)
Chromosome 4
Position 16.04 MB
Confidence uncalculated
Protocol CAPS

Arabidopsis COSII

Other PCR data

PCR data Exp. ID 11548
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes
Accessions and product sizes Solanum pennellii LA716: 1450	Approximate temperature 55°C

PCR data Exp. ID 11549
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes
Accessions and product sizes Solanum lycopersicum LA925: 1400	Approximate temperature 55°C

PCR data Exp. ID 11550
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes
Accessions and product sizes Solanum pimpinellifolium LA1589: 1400	Approximate temperature 55°C

PCR data Exp. ID 13522
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes
Accessions and product sizes Solanum tuberosum TA3427: 150	Approximate temperature 55°C

PCR data Exp. ID 13523
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes
Accessions and product sizes Solanum melongena TA2986: 150	Approximate temperature 55°C

PCR data Exp. ID 13524
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes
Accessions and product sizes Capsicum annuum TA3428: 1200	Approximate temperature 55°C

PCR data Exp. ID 13525
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3346: 1200	Approximate temperature 55°C

PCR data Exp. ID 13526
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3347: 1200	Approximate temperature 55°C

PCR data Exp. ID 13527
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes
Accessions and product sizes Nicotiana tomentosiformis TA3349: 1250	Approximate temperature 55°C

PCR data Exp. ID 13528
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes
Accessions and product sizes Nicotiana otophora TA3350: 1400	Approximate temperature 55°C

PCR data Exp. ID 13529
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes
Accessions and product sizes Nicotiana plumbaginifolia TA3354: 1200+1400	Approximate temperature 55°C

PCR data Exp. ID 13530
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes
Accessions and product sizes Physalis TA1367: 1500	Approximate temperature 55°C

PCR data Exp. ID 13531
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes
Accessions and product sizes Petunia axillaris TA3309: 1400	Approximate temperature 55°C

PCR data Exp. ID 13532
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes
Accessions and product sizes Petunia axillaris subsp. parodii TA3310: Multiple	Approximate temperature 55°C

PCR data Exp. ID 13533
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes
Accessions and product sizes Petunia x hybrida TA3311: 1400	Approximate temperature 55°C

PCR data Exp. ID 13534
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes
Accessions and product sizes Petunia integrifolia TA3312: 1400	Approximate temperature 55°C

PCR data Exp. ID 13535
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes
Accessions and product sizes Coffea canephora BP409: 1400	Approximate temperature 55°C

PCR data Exp. ID 33130
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3346: 1200	Approximate temperature 55°C

PCR data Exp. ID 33131
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3347: 1200	Approximate temperature 55°C

PCR data Exp. ID 33132
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes
Accessions and product sizes Nicotiana tomentosiformis TA3349: 1250	Approximate temperature 55°C

PCR data Exp. ID 33133
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes
Accessions and product sizes Nicotiana otophora TA3350: 1400	Approximate temperature 55°C

PCR data Exp. ID 11551
Forward primer (5'-3') TCCAGATTACAGCCTGTGTCTCTTC	Digested band sizes (using amplicon difference) Solanum pennellii LA716: 1450 Solanum lycopersicum LA925: 1400	Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGGCGGCTCTTTGCAGCTTCATC	Enzymes All possible enzymes for pennellii and and lycopersicum: amplicon difference
Accessions and product sizes Solanum pennellii LA716: 1450 Solanum lycopersicum LA925: 1400	Approximate temperature 55°C

Unigene blast matches for primers

SGN-U216333
SGN-U270257

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

Input file for PAUP, NEXUS format
Phylogenetic tree
Phylogenetic tree | [View]

BLASTX result of original unigene sequences against Arabidopsis protein database

Input file for PAUP, NEXUS format
Phylogenetic tree
Phylogenetic tree | [View]

Related Markers

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

Genomic location of C2_At4g33250

%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D4718 marker 4718

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

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