Sol Genomics Network

SGN Marker C2_At1g14310

SGN-M4689
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	307639 (SGN) 130548 (CGN)	-	-	-
Lycopersicon Combined	Single	SGN-U225210	-	-	-
Arabidopsis	Single	At1g14310 on TAIR	-	-	-

Mapped locations

Map: Pepper-COSII
Map version 58 (location: 41299)
Chromosome 1
Position 119.90 cM
Confidence I
Protocol dCAPS

Pepper-COSII

PCR data Exp. ID 43275

Forward primer (5'-3')

CGATACCTACTTTGAAGAAGTATTC

Accessions and product sizes

Approximate temperature

55°C

Reverse primer (5'-3')

TCAGTATTGTGTCATAGGCTCCAGC

Digested band sizes (using unknown enzyme)

Mg⁺² concentration

Unknown

Enzymes

Map: Tomato-EXPEN 2000
Map version 52 (location: 38100)
Chromosome 1
Position 30.50 cM
Confidence I
Protocol CAPS

Tomato-EXPEN 2000

PCR data Exp. ID 39392

Forward primer (5'-3')

TAGTGACGATACCTACTTTGAAGAAG

Accessions and product sizes

Solanum pennellii TA56

200

Solanum lycopersicum TA209

200

Approximate temperature

55°C

Reverse primer (5'-3')

TCAGTATTGTGTCATAGGCTCCAGC

Digested band sizes (using amplicon difference)

Solanum pennellii TA56

200

Solanum lycopersicum TA209

100

Mg⁺² concentration

1.5mM

Enzymes

Map: Arabidopsis COSII
Map version 44 (location: 25007)
Chromosome 1
Position 4.89 MB
Confidence uncalculated
Protocol CAPS

Arabidopsis COSII

Other PCR data

PCR data Exp. ID 10029
Forward primer (5'-3') TAGTGACGATACCTACTTTGAAGAAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCAGTATTGTGTCATAGGCTCCAGC	Enzymes
Accessions and product sizes Solanum pennellii LA716: 200	Approximate temperature 55°C

PCR data Exp. ID 10030
Forward primer (5'-3') TAGTGACGATACCTACTTTGAAGAAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCAGTATTGTGTCATAGGCTCCAGC	Enzymes
Accessions and product sizes Solanum lycopersicum LA925: 200	Approximate temperature 55°C

PCR data Exp. ID 10031
Forward primer (5'-3') TAGTGACGATACCTACTTTGAAGAAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCAGTATTGTGTCATAGGCTCCAGC	Enzymes
Accessions and product sizes Solanum pimpinellifolium LA1589: 200	Approximate temperature 55°C

PCR data Exp. ID 12449
Forward primer (5'-3') TAGTGACGATACCTACTTTGAAGAAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCAGTATTGTGTCATAGGCTCCAGC	Enzymes
Accessions and product sizes Solanum tuberosum TA3427: 220	Approximate temperature 55°C

PCR data Exp. ID 12450
Forward primer (5'-3') TAGTGACGATACCTACTTTGAAGAAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCAGTATTGTGTCATAGGCTCCAGC	Enzymes
Accessions and product sizes Capsicum annuum TA3428: 250	Approximate temperature 55°C

PCR data Exp. ID 12451
Forward primer (5'-3') TAGTGACGATACCTACTTTGAAGAAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCAGTATTGTGTCATAGGCTCCAGC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3346: 250	Approximate temperature 55°C

PCR data Exp. ID 12452
Forward primer (5'-3') TAGTGACGATACCTACTTTGAAGAAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCAGTATTGTGTCATAGGCTCCAGC	Enzymes
Accessions and product sizes Nicotiana tomentosiformis TA3349: 220	Approximate temperature 55°C

PCR data Exp. ID 12453
Forward primer (5'-3') TAGTGACGATACCTACTTTGAAGAAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCAGTATTGTGTCATAGGCTCCAGC	Enzymes
Accessions and product sizes Nicotiana otophora TA3350: 220	Approximate temperature 55°C

PCR data Exp. ID 12454
Forward primer (5'-3') TAGTGACGATACCTACTTTGAAGAAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCAGTATTGTGTCATAGGCTCCAGC	Enzymes
Accessions and product sizes Nicotiana plumbaginifolia TA3354: 220	Approximate temperature 55°C

PCR data Exp. ID 12455
Forward primer (5'-3') TAGTGACGATACCTACTTTGAAGAAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCAGTATTGTGTCATAGGCTCCAGC	Enzymes
Accessions and product sizes Physalis TA1367: 220	Approximate temperature 55°C

PCR data Exp. ID 12456
Forward primer (5'-3') TAGTGACGATACCTACTTTGAAGAAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCAGTATTGTGTCATAGGCTCCAGC	Enzymes
Accessions and product sizes Petunia axillaris TA3309: 220	Approximate temperature 55°C

PCR data Exp. ID 12457
Forward primer (5'-3') TAGTGACGATACCTACTTTGAAGAAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCAGTATTGTGTCATAGGCTCCAGC	Enzymes
Accessions and product sizes Petunia x hybrida TA3311: 220	Approximate temperature 55°C

PCR data Exp. ID 12458
Forward primer (5'-3') TAGTGACGATACCTACTTTGAAGAAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCAGTATTGTGTCATAGGCTCCAGC	Enzymes
Accessions and product sizes Petunia integrifolia TA3312: 220	Approximate temperature 55°C

PCR data Exp. ID 32593
Forward primer (5'-3') TAGTGACGATACCTACTTTGAAGAAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCAGTATTGTGTCATAGGCTCCAGC	Enzymes
Accessions and product sizes Solanum lycopersicum LA925: Multiple	Approximate temperature 55°C

PCR data Exp. ID 32703
Forward primer (5'-3') TAGTGACGATACCTACTTTGAAGAAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCAGTATTGTGTCATAGGCTCCAGC	Enzymes
Accessions and product sizes Solanum pimpinellifolium LA1589: 220	Approximate temperature 55°C

PCR data Exp. ID 32704
Forward primer (5'-3') TAGTGACGATACCTACTTTGAAGAAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCAGTATTGTGTCATAGGCTCCAGC	Enzymes
Accessions and product sizes Solanum pennellii LA716: 220	Approximate temperature 55°C

PCR data Exp. ID 32705
Forward primer (5'-3') TAGTGACGATACCTACTTTGAAGAAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCAGTATTGTGTCATAGGCTCCAGC	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3346: 250	Approximate temperature 55°C

PCR data Exp. ID 32706
Forward primer (5'-3') TAGTGACGATACCTACTTTGAAGAAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCAGTATTGTGTCATAGGCTCCAGC	Enzymes
Accessions and product sizes Nicotiana tomentosiformis TA3349: 220	Approximate temperature 55°C

PCR data Exp. ID 32707
Forward primer (5'-3') TAGTGACGATACCTACTTTGAAGAAG		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCAGTATTGTGTCATAGGCTCCAGC	Enzymes
Accessions and product sizes Nicotiana otophora TA3350: 220	Approximate temperature 55°C

PCR data Exp. ID 10032
Forward primer (5'-3') TAGTGACGATACCTACTTTGAAGAAG	Digested band sizes (using AluI) Solanum pennellii LA716: 200 Solanum lycopersicum LA925: 100	Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TCAGTATTGTGTCATAGGCTCCAGC	Enzymes All possible enzymes for pennellii and and lycopersicum: AluI
Accessions and product sizes Solanum pennellii LA716: 200 Solanum lycopersicum LA925: 200	Approximate temperature 55°C

Unigene blast matches for primers

SGN-U225210

Overgo hybridization and physical mapping

C2_At1g14310 was used as an overgo probe on plate 13 [well G6]

Plausible BAC Matches: None

Overgo Sequences

A sequence

CTGGGTCATACACAACTCGCTGTT

B sequence

GAGGAAGAAGAGGAAGAACAGCGA

AB sequence

CTGGGTCATACACAACTCGCTGTTCTTCCT

Marker sequence

ATGGAAGCCGGTACTTTTCTCAGAGCTCTGAATCCTTTCAAATTCAGAGC
AAAATTTTCTGGGTCATACACAACTCGCTGTTCTTCCTCTTCTTCCTCTA
TCAAGATTCCCACTGGGANNNNNAAGAAATGGGGAGGAGAGCATATGATG
GATTGTTGTTGGATGCAGCAAATACACTTTTGCAATTGTCAAAGCCAGTT
GAAGAGACTTATGCTGGGATTGGCAAGAAANNNNNTATNNGNNNNNGATG
ATGGACGGCCTTTCTGGAAGCTTGTAGTTTCTGAAGCAACTGGCTGTAGT
GACGATACCTACTTTGAAGAAGTATACCAGNNNNNCACTATGCAAGTGGA
GAGGCATGGCATCTTCCAGCTGGAGCCTATGACACAATACTGATTCTGAA
ACGTTCAGGAGNNNNNTCAAACTGGCCGGTGTATCCAACTTCGACACCCG
GTTGAGGAAGATTTTGAAAGATCTGAACNNNNNNNNNNNNNNN

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]