Sol Genomics Network

SGN Marker C2_At3g26060

SGN-M4665
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	302141 (SGN) 121200 (CGN)	-	-	-
Capsicum annuum	Single	SGN-U202267	-	-	-
Lycopersicon Combined	Multiple	SGN-U214003	-	-	-
Solanum tuberosum	Single	SGN-U258485	-	-	-
Arabidopsis	Single	At3g26060 on TAIR	-	-	-

Mapped locations

Map: Pepper-COSII
Map version 58 (location: 41431)
Chromosome 7
Position 53.00 cM
Confidence I
Protocol CAPS

Pepper-COSII

PCR data Exp. ID 43407

Forward primer (5'-3')

CCACCATTCACATTGAAAGATCAAGA

Accessions and product sizes

Approximate temperature

55°C

Reverse primer (5'-3')

GTCTGTCTACCAGGCAATGTACCAAA

Digested band sizes (using unknown enzyme)

Mg⁺² concentration

Unknown

Enzymes

Map: Tomato-EXPEN 2000
Map version 52 (location: 38517)
Chromosome 7
Position 28.00 cM
Confidence I
Protocol CAPS

Tomato-EXPEN 2000

PCR data Exp. ID 39740

Forward primer (5'-3')

ATCAAGAACTTCAATTGTTGCTAAGG

Accessions and product sizes

Solanum pennellii TA56

250

Solanum lycopersicum TA209

250

Approximate temperature

55°C

Reverse primer (5'-3')

TGCAACCAGGAGTTTCATCAGCAGG

Digested band sizes (using amplicon difference)

Solanum lycopersicum TA209

250

Solanum pennellii TA56

190

Mg⁺² concentration

1.5mM

Enzymes

Map: Arabidopsis COSII
Map version 44 (location: 26313)
Chromosome 3
Position 9.53 MB
Confidence uncalculated
Protocol CAPS

Arabidopsis COSII

Other PCR data

PCR data Exp. ID 11154
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes
Accessions and product sizes Solanum pennellii LA716: 250	Approximate temperature 55°C

PCR data Exp. ID 11155
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes
Accessions and product sizes Solanum lycopersicum LA925: 250	Approximate temperature 55°C

PCR data Exp. ID 11156
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes
Accessions and product sizes Solanum pimpinellifolium LA1589: 250	Approximate temperature 55°C

PCR data Exp. ID 13268
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes
Accessions and product sizes Solanum tuberosum TA3427: 250	Approximate temperature 55°C

PCR data Exp. ID 13269
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes
Accessions and product sizes Solanum melongena TA2986: 200	Approximate temperature 55°C

PCR data Exp. ID 13270
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes
Accessions and product sizes Capsicum annuum TA3428: 250	Approximate temperature 55°C

PCR data Exp. ID 13271
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3346: 250	Approximate temperature 55°C

PCR data Exp. ID 13272
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3347: 250	Approximate temperature 55°C

PCR data Exp. ID 13273
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes
Accessions and product sizes Nicotiana tomentosiformis TA3349: 250	Approximate temperature 55°C

PCR data Exp. ID 13274
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes
Accessions and product sizes Nicotiana otophora TA3350: 250	Approximate temperature 55°C

PCR data Exp. ID 13275
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes
Accessions and product sizes Nicotiana plumbaginifolia TA3354: 250	Approximate temperature 55°C

PCR data Exp. ID 13276
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes
Accessions and product sizes Physalis TA1367: 250	Approximate temperature 55°C

PCR data Exp. ID 13277
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes
Accessions and product sizes Petunia axillaris TA3309: 250	Approximate temperature 55°C

PCR data Exp. ID 13278
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes
Accessions and product sizes Petunia axillaris subsp. parodii TA3310: 200	Approximate temperature 55°C

PCR data Exp. ID 13279
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes
Accessions and product sizes Petunia x hybrida TA3311: 200	Approximate temperature 55°C

PCR data Exp. ID 13280
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes
Accessions and product sizes Petunia integrifolia TA3312: 250	Approximate temperature 55°C

PCR data Exp. ID 13281
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes
Accessions and product sizes Coffea canephora BP409: 200	Approximate temperature 55°C

PCR data Exp. ID 33040
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3346: 250	Approximate temperature 55°C

PCR data Exp. ID 33041
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3347: 250	Approximate temperature 55°C

PCR data Exp. ID 33042
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes
Accessions and product sizes Nicotiana tomentosiformis TA3349: 250	Approximate temperature 55°C

PCR data Exp. ID 33043
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes
Accessions and product sizes Nicotiana otophora TA3350: 250	Approximate temperature 55°C

PCR data Exp. ID 11157
Forward primer (5'-3') ATCAAGAACTTCAATTGTTGCTAAGG	Digested band sizes (using AluI) Solanum lycopersicum LA925: 250 Solanum pennellii LA716: 190	Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TGCAACCAGGAGTTTCATCAGCAGG	Enzymes All possible enzymes for pennellii and and lycopersicum: AluI
Accessions and product sizes Solanum lycopersicum LA925: 250 Solanum pennellii LA716: 250	Approximate temperature 55°C

Unigene blast matches for primers

SGN-U214003

Overgo hybridization and physical mapping

C2_At3g26060 was used as an overgo probe on plate 13 [well D7]

Plausible BAC Matches: P287B22, P248P12

Overgo Sequences

A sequence

AGCCTGTGGTGGTTTATTTCTACC

B sequence

GGAGTTTCATCAGCAGGGTAGAAA

AB sequence

AGCCTGTGGTGGTTTATTTCTACCCTGCTG

Marker sequence

ATGGCTTCTCTATCGGTCTCTGTAAAACACACTCTTCCTTCTCTGCTCCA
ATATGCTCAAACCCCAAAAAAACCCATCTCCCAAAACCTTACCATTGTCT
CCAGATCATCACAATCCCATTTTTATGGCCTTGAAGTCCTTCATTCACCT
TCTTTTTCAACCCCATCTTCTTCAAGAACTTCAATTGTTGCTAAGNNNNN
GTGAATAAAGGTTCAGCGCCTCCACCATTCACATTGAAAGATCAAGATGG
AAAAAATGTGAGTCTCTCCAAGTTTAAAGGAAAGCCTGTGGTGGTTTATT
TCTACCCTGCTGATGAAACTCCTGGTTGCACCAAACAGNNNNNGCATGTG
CCTTCAGGGACTCTTATGAAAAATTCAAGAAAGCAGGGGCTCAAGTTGTT
GGAATTAGTGGTGATGATATTGAATCCCACAAGNNNNNGCCTTTGCAAAG
AAGTACAGGCTCCCATTTACCTTGTTGTGTGATGAAGGCAACAAAGTTAG
GAAAGAGTGGGGAATCCCGGGAGACCTTTTTGGTACATTGCCTGGTAGAC
AGACTTATGTGCTTGACAAGAATGGAGTGGTTCAACTCATATATAATAAT
CAGTTCCAACCTGAAAAGCATATTGATGAGACATTGAAGTTACTTCAAAG
TCTTTAA

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