Sol Genomics Network

SGN Marker C2_At5g49970

SGN-M9022
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	308750 (SGN) 127500 (CGN)	-	-	-
Lycopersicon Combined	Multiple	SGN-U218657	-	-	-
Solanum tuberosum	Single	SGN-U255980	-	-	-
Arabidopsis	Single	At5g49970 on TAIR	-	-	-

Mapped locations

Map: Eggplant-COSII
Map version 63 (location: 42260)
Chromosome 3
Position 113.20 cM
Confidence F(LOD3)
Protocol CAPS

Eggplant-COSII

PCR data Exp. ID 43829

Forward primer (5'-3')

AGGTAGATTTTAGTAGGGGAAATCC

Accessions and product sizes

Approximate temperature

55°C

Reverse primer (5'-3')

TCCCACCATTGTTACCAGGACCAC

Digested band sizes (using unknown enzyme)

Mg⁺² concentration

Unknown

Enzymes

Map: Pepper-COSII
Map version 58 (location: 41540)
Chromosome 3
Position 114.40 cM
Confidence I
Protocol CAPS

Pepper-COSII

PCR data Exp. ID 43516

Forward primer (5'-3')

AATTGGCAGGCTTGAGTGTTGC

Accessions and product sizes

Approximate temperature

55°C

Reverse primer (5'-3')

TCCCACCATTGTTACCAGGACCAC

Digested band sizes (using unknown enzyme)

Mg⁺² concentration

Unknown

Enzymes

Map: Tomato-EXPEN 2000
Map version 52 (location: 38882)
Chromosome 3
Position 99.50 cM
Confidence I(LOD2)
Protocol CAPS

Tomato-EXPEN 2000

PCR data Exp. ID 39984

Forward primer (5'-3')

AATTGGCAGGCTTGAGTGTTGC

Accessions and product sizes

Solanum pennellii TA56

100

Solanum lycopersicum TA209

100

Approximate temperature

55°C

Reverse primer (5'-3')

TCCCACCATTGTTACCAGGACCAC

Digested band sizes (using unknown enzyme)

Mg⁺² concentration

1.5mM

Enzymes

Map: Arabidopsis COSII
Map version 44 (location: 27490)
Chromosome 5
Position 20.35 MB
Confidence uncalculated
Protocol CAPS

Arabidopsis COSII

Other PCR data

PCR data Exp. ID 11975
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes
Accessions and product sizes Solanum pennellii LA716: 580+750	Approximate temperature 55°C

PCR data Exp. ID 11976
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes
Accessions and product sizes Solanum lycopersicum LA925: 580+750	Approximate temperature 55°C

PCR data Exp. ID 11977
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes
Accessions and product sizes Solanum pimpinellifolium LA1589: 580+750	Approximate temperature 55°C

PCR data Exp. ID 13880
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes
Accessions and product sizes Solanum tuberosum TA3427: 400+700	Approximate temperature 55°C

PCR data Exp. ID 13881
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes
Accessions and product sizes Solanum melongena TA2986: 680	Approximate temperature 55°C

PCR data Exp. ID 13882
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes
Accessions and product sizes Capsicum annuum TA3428: 750	Approximate temperature 55°C

PCR data Exp. ID 13883
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3346: 400+1200	Approximate temperature 55°C

PCR data Exp. ID 13884
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3347: Multiple	Approximate temperature 55°C

PCR data Exp. ID 13885
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes
Accessions and product sizes Nicotiana tomentosiformis TA3349: 400+650	Approximate temperature 55°C

PCR data Exp. ID 13886
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes
Accessions and product sizes Nicotiana otophora TA3350: 400+650	Approximate temperature 55°C

PCR data Exp. ID 13887
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes
Accessions and product sizes Physalis TA1367: 750+920	Approximate temperature 55°C

PCR data Exp. ID 13888
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes
Accessions and product sizes Petunia axillaris subsp. parodii TA3310: 150+700	Approximate temperature 55°C

PCR data Exp. ID 13889
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes
Accessions and product sizes Petunia x hybrida TA3311: 150+700	Approximate temperature 55°C

PCR data Exp. ID 13890
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes
Accessions and product sizes Coffea canephora BP409: 1300	Approximate temperature 55°C

PCR data Exp. ID 32659
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes
Accessions and product sizes Solanum lycopersicum LA925: 480+700	Approximate temperature 55°C

PCR data Exp. ID 33271
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes
Accessions and product sizes Solanum pimpinellifolium LA1589: 480+700	Approximate temperature 55°C

PCR data Exp. ID 33272
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes
Accessions and product sizes Solanum pennellii LA716: 480+700	Approximate temperature 55°C

PCR data Exp. ID 33273
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3346: 400+1200	Approximate temperature 55°C

PCR data Exp. ID 33274
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3347: Multiple	Approximate temperature 55°C

PCR data Exp. ID 33275
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes
Accessions and product sizes Nicotiana tomentosiformis TA3349: 400+650	Approximate temperature 55°C

PCR data Exp. ID 33276
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes
Accessions and product sizes Nicotiana otophora TA3350: 400+650	Approximate temperature 55°C

PCR data Exp. ID 11978
Forward primer (5'-3') AATTGGCAGGCTTGAGTGTTGC	Digested band sizes (using TaqI) Solanum lycopersicum LA925: 410+510 Solanum pennellii LA716: 510+640	Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCCCACCATTGTTACCAGGACCAC	Enzymes All possible enzymes for pennellii and and lycopersicum: DraI, TaqI, HinfI, DpanII
Accessions and product sizes Solanum lycopersicum LA925: 580+750 Solanum pennellii LA716: 580+750	Approximate temperature 55°C

Unigene blast matches for primers

SGN-U231102

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_At5g49970

%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D9022 marker 9022

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

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