Sol Genomics Network

SGN Marker C2_At1g44446

SGN-M6806
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	300289 (SGN) 122358 (CGN)	-	-	-
Capsicum annuum	Single	SGN-U197756	-	-	-
Lycopersicon Combined	Multiple	SGN-U220686	-	-	-
Solanum tuberosum	Single	SGN-U256856	-	-	-
Arabidopsis	Single	At1g44446 on TAIR	-	-	-

Mapped locations

Map: Eggplant-RAD 2012
Map version 174 (location: 132179)
Chromosome 6
Position 70.83 cM
Confidence uncalculated
Protocol CAPS

Eggplant-RAD 2012

Map: Tomato-EXPEN 2000
Map version 52 (location: 38178)
Chromosome 11
Position 40.50 cM
Confidence I
Protocol CAPS

Tomato-EXPEN 2000

PCR data Exp. ID 39459

Forward primer (5'-3')

AGATCTTGCACACGCACCTTTCAC

Accessions and product sizes

Solanum lycopersicum TA209

100

Solanum pennellii TA56

100

Approximate temperature

55°C

Reverse primer (5'-3')

TCCTTGCAGACCAGATGCAGGAGTC

Digested band sizes (using unknown enzyme)

Mg⁺² concentration

1.5mM

Enzymes

Map: Arabidopsis COSII
Map version 44 (location: 25212)
Chromosome 1
Position 16.85 MB
Confidence uncalculated
Protocol CAPS

Arabidopsis COSII

Other PCR data

PCR data Exp. ID 10199
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes
Accessions and product sizes Solanum pennellii LA716: 350	Approximate temperature 55°C

PCR data Exp. ID 10200
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes
Accessions and product sizes Solanum lycopersicum LA925: 350	Approximate temperature 55°C

PCR data Exp. ID 10201
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes
Accessions and product sizes Solanum pimpinellifolium LA1589: 350	Approximate temperature 55°C

PCR data Exp. ID 12608
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes
Accessions and product sizes Solanum tuberosum TA3427: 300	Approximate temperature 55°C

PCR data Exp. ID 12609
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes
Accessions and product sizes Solanum melongena TA2986: 300+900	Approximate temperature 55°C

PCR data Exp. ID 12610
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes
Accessions and product sizes Capsicum annuum TA3428: 300+400	Approximate temperature 55°C

PCR data Exp. ID 12611
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3346: 250	Approximate temperature 55°C

PCR data Exp. ID 12612
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3347: 250	Approximate temperature 55°C

PCR data Exp. ID 12613
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes
Accessions and product sizes Nicotiana tomentosiformis TA3349: 350	Approximate temperature 55°C

PCR data Exp. ID 12614
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes
Accessions and product sizes Nicotiana otophora TA3350: 300	Approximate temperature 55°C

PCR data Exp. ID 12615
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes
Accessions and product sizes Nicotiana plumbaginifolia TA3354: 350	Approximate temperature 55°C

PCR data Exp. ID 12616
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes
Accessions and product sizes Physalis TA1367: 700	Approximate temperature 55°C

PCR data Exp. ID 12617
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes
Accessions and product sizes Petunia axillaris TA3309: 350+750	Approximate temperature 55°C

PCR data Exp. ID 12618
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes
Accessions and product sizes Petunia axillaris subsp. parodii TA3310: 300+700	Approximate temperature 55°C

PCR data Exp. ID 12619
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes
Accessions and product sizes Petunia x hybrida TA3311: 700	Approximate temperature 55°C

PCR data Exp. ID 12620
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes
Accessions and product sizes Petunia integrifolia TA3312: 750	Approximate temperature 55°C

PCR data Exp. ID 12621
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes
Accessions and product sizes Coffea canephora BP409: 550	Approximate temperature 55°C

PCR data Exp. ID 32762
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3346: 250	Approximate temperature 55°C

PCR data Exp. ID 32763
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3347: 250	Approximate temperature 55°C

PCR data Exp. ID 32764
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes
Accessions and product sizes Nicotiana tomentosiformis TA3349: 350	Approximate temperature 55°C

PCR data Exp. ID 32765
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes
Accessions and product sizes Nicotiana otophora TA3350: 300	Approximate temperature 55°C

PCR data Exp. ID 10202
Forward primer (5'-3') AGATCTTGCACACGCACCTTTCAC	Digested band sizes (using DraI) Solanum lycopersicum LA925: 350 Solanum pennellii LA716: 300	Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCTTGCAGACCAGATGCAGGAGTC	Enzymes All possible enzymes for pennellii and and lycopersicum: DraI
Accessions and product sizes Solanum lycopersicum LA925: 350 Solanum pennellii LA716: 350	Approximate temperature 55°C

Unigene blast matches for primers

SGN-U220686

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]
Forward amplicon sequence for S. betaceum 6002061 plant #4, AB1 chromatogram - [View]
Forward amplicon sequence for S. betaceum 6002061 plant #4, plain text
Forward amplicon sequence for S. uniloba 6002078 plant #6, AB1 chromatogram - [View]
Forward amplicon sequence for S. uniloba 6002078 plant #6, plain text

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_At1g44446

%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D6806 marker 6806

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

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