Sol Genomics Network

SGN Marker C2_At5g23940

SGN-M8825
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	304874 (SGN) 119854 (CGN)	-	-	-
Capsicum annuum	Single	SGN-U197044	-	-	-
Lycopersicon Combined	Multiple	SGN-U214502	-	-	-
Solanum tuberosum	Single	SGN-U244501	-	-	-
Arabidopsis	Single	At5g23940 on TAIR	-	-	-

Mapped locations

Map: Tomato-EXPEN 2000
Map version 52 (location: 38822)
Chromosome 3
Position 54.70 cM
Confidence I
Protocol CAPS

Tomato-EXPEN 2000

PCR data Exp. ID 41760

Forward primer (5'-3')

AACTTGCTGGAAAATTGGGAAAAGATG

Accessions and product sizes

Approximate temperature

Unknown

Reverse primer (5'-3')

TAGGTTTCCGAAGTAACTCTCCGGC

Digested band sizes (using unknown enzyme)

Mg⁺² concentration

1.5mM

Enzymes

Map: Arabidopsis COSII
Map version 44 (location: 27286)
Chromosome 5
Position 8.08 MB
Confidence uncalculated
Protocol CAPS

Arabidopsis COSII

Other PCR data

PCR data Exp. ID 11812
Forward primer (5'-3') TAGGCCTCTACTCGCCGTACAGC		Mg⁺² concentration 3mM
Reverse primer (5'-3') TTAGTTCTTTCGAGGAAAGGTGGG	Enzymes
Accessions and product sizes Solanum pennellii LA716: 100	Approximate temperature 53°C

PCR data Exp. ID 11813
Forward primer (5'-3') TAGGCCTCTACTCGCCGTACAGC		Mg⁺² concentration 3mM
Reverse primer (5'-3') TTAGTTCTTTCGAGGAAAGGTGGG	Enzymes
Accessions and product sizes Solanum lycopersicum LA925: 150	Approximate temperature 53°C

PCR data Exp. ID 11814
Forward primer (5'-3') TAGGCCTCTACTCGCCGTACAGC		Mg⁺² concentration 3mM
Reverse primer (5'-3') TTAGTTCTTTCGAGGAAAGGTGGG	Enzymes
Accessions and product sizes Solanum pimpinellifolium LA1589: 150	Approximate temperature 53°C

PCR data Exp. ID 13798
Forward primer (5'-3') TAGGCCTCTACTCGCCGTACAGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTAGTTCTTTCGAGGAAAGGTGGG	Enzymes
Accessions and product sizes Solanum tuberosum TA3427: 200	Approximate temperature 55°C

PCR data Exp. ID 13799
Forward primer (5'-3') TAGGCCTCTACTCGCCGTACAGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTAGTTCTTTCGAGGAAAGGTGGG	Enzymes
Accessions and product sizes Capsicum annuum TA3428: 200	Approximate temperature 55°C

PCR data Exp. ID 13800
Forward primer (5'-3') TAGGCCTCTACTCGCCGTACAGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTAGTTCTTTCGAGGAAAGGTGGG	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3346: Multiple	Approximate temperature 55°C

PCR data Exp. ID 13801
Forward primer (5'-3') TAGGCCTCTACTCGCCGTACAGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTAGTTCTTTCGAGGAAAGGTGGG	Enzymes
Accessions and product sizes Nicotiana tomentosiformis TA3349: Multiple	Approximate temperature 55°C

PCR data Exp. ID 13802
Forward primer (5'-3') TAGGCCTCTACTCGCCGTACAGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTAGTTCTTTCGAGGAAAGGTGGG	Enzymes
Accessions and product sizes Nicotiana otophora TA3350: 200	Approximate temperature 55°C

PCR data Exp. ID 13803
Forward primer (5'-3') TAGGCCTCTACTCGCCGTACAGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTAGTTCTTTCGAGGAAAGGTGGG	Enzymes
Accessions and product sizes Nicotiana plumbaginifolia TA3354: 200	Approximate temperature 55°C

PCR data Exp. ID 13804
Forward primer (5'-3') TAGGCCTCTACTCGCCGTACAGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTAGTTCTTTCGAGGAAAGGTGGG	Enzymes
Accessions and product sizes Physalis TA1367: 200	Approximate temperature 55°C

PCR data Exp. ID 13805
Forward primer (5'-3') TAGGCCTCTACTCGCCGTACAGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTAGTTCTTTCGAGGAAAGGTGGG	Enzymes
Accessions and product sizes Petunia axillaris TA3309: Multiple	Approximate temperature 55°C

PCR data Exp. ID 13806
Forward primer (5'-3') TAGGCCTCTACTCGCCGTACAGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTAGTTCTTTCGAGGAAAGGTGGG	Enzymes
Accessions and product sizes Petunia x hybrida TA3311: Multiple	Approximate temperature 55°C

PCR data Exp. ID 13807
Forward primer (5'-3') TAGGCCTCTACTCGCCGTACAGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTAGTTCTTTCGAGGAAAGGTGGG	Enzymes
Accessions and product sizes Petunia integrifolia TA3312: Multiple	Approximate temperature 55°C

PCR data Exp. ID 32656
Forward primer (5'-3') TAGGCCTCTACTCGCCGTACAGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTAGTTCTTTCGAGGAAAGGTGGG	Enzymes
Accessions and product sizes Solanum lycopersicum LA925: 200+450	Approximate temperature 55°C

PCR data Exp. ID 33236
Forward primer (5'-3') TAGGCCTCTACTCGCCGTACAGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTAGTTCTTTCGAGGAAAGGTGGG	Enzymes
Accessions and product sizes Solanum pimpinellifolium LA1589: 200+450	Approximate temperature 55°C

PCR data Exp. ID 33237
Forward primer (5'-3') TAGGCCTCTACTCGCCGTACAGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTAGTTCTTTCGAGGAAAGGTGGG	Enzymes
Accessions and product sizes Solanum pennellii LA716: 200+450	Approximate temperature 55°C

PCR data Exp. ID 33238
Forward primer (5'-3') TAGGCCTCTACTCGCCGTACAGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTAGTTCTTTCGAGGAAAGGTGGG	Enzymes
Accessions and product sizes Nicotiana sylvestris TA3346: Multiple	Approximate temperature 55°C

PCR data Exp. ID 33239
Forward primer (5'-3') TAGGCCTCTACTCGCCGTACAGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTAGTTCTTTCGAGGAAAGGTGGG	Enzymes
Accessions and product sizes Nicotiana tomentosiformis TA3349: Multiple	Approximate temperature 55°C

PCR data Exp. ID 33240
Forward primer (5'-3') TAGGCCTCTACTCGCCGTACAGC		Mg⁺² concentration 1.5mM
Reverse primer (5'-3') TTAGTTCTTTCGAGGAAAGGTGGG	Enzymes
Accessions and product sizes Nicotiana otophora TA3350: 200	Approximate temperature 55°C

Unigene blast matches for primers

SGN-U214502

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_At5g23940

%2Fsearch%2Fmarkers%2Fmarkerinfo.pl%3Fmarker_id%3D8825 marker 8825

User comments

Please wait, checking for comments. (If comments do not show up, access them here)

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

Attribute	Value
Project Name:
Start Date:
End Date:
Event Type:
Event Description:
Event Web URL: