SEP3 K-box region and MADS-box transcription factor family protein [Arabidopsis thaliana (thale cress)] - Gene

Summary

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Official Symbol: SEP3
Official Full Name: K-box region and MADS-box transcription factor family protein
Primary source: TAIR:AT1G24260
Locus tag: AT1G24260
See related: Araport:AT1G24260
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Arabidopsis thaliana (ecotype: Columbia)
Lineage: Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as: AGAMOUS-like 9; AGL9; F3I6.19; F3I6_19; SEPALLATA3; TRANSCRIPTION FACTOR AGL9
Summary: Member of the MADs box transcription factor family. SEP3 is redundant with SEP1 and 2. Flowers of SEP1/2/3 triple mutants show a conversion of petals and stamens to sepals.SEP3 forms heterotetrameric complexes with other MADS box family members and binds to the CArG box motif.
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Genomic context

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See SEP3 in Genome Data Viewer

Location:: chromosome: 1

Exon count:: 8

Sequence:: Chromosome: 1; NC_003070.9 (8593536..8596123, complement)

Chromosome 1 - NC_003070.9 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003070.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Antagonistic MADS-box transcription factors SEEDSTICK and SEPALLATA3 form a transcriptional regulatory network that regulates seed oil accumulation.
Title: Antagonistic MADS-box transcription factors SEEDSTICK and SEPALLATA3 form a transcriptional regulatory network that regulates seed oil accumulation.
Arabidopsis N6-methyladenosine methyltransferase FIONA1 regulates floral transition by affecting the splicing of FLC and the stability of floral activators SPL3 and SEP3.
Title: Arabidopsis N6-methyladenosine methyltransferase FIONA1 regulates floral transition by affecting the splicing of FLC and the stability of floral activators SPL3 and SEP3.
Arabidopsis CURLY LEAF functions in leaf immunity against fungal pathogens by concomitantly repressing SEPALLATA3 and activating ORA59.
Title: Arabidopsis CURLY LEAF functions in leaf immunity against fungal pathogens by concomitantly repressing SEPALLATA3 and activating ORA59.
DNA-binding properties of the MADS-domain transcription factor SEPALLATA3 and mutant variants characterized by SELEX-seq.
Title: DNA-binding properties of the MADS-domain transcription factor SEPALLATA3 and mutant variants characterized by SELEX-seq.
Genome-wide binding of SEPALLATA3 and AGAMOUS complexes determined by sequential DNA-affinity purification sequencing.
Title: Genome-wide binding of SEPALLATA3 and AGAMOUS complexes determined by sequential DNA-affinity purification sequencing.
Leucine residues at certain key positions form a leucine-zipper structure that is essential for tetramerization of SEP3.
Title: A conserved leucine zipper-like motif accounts for strong tetramerization capabilities of SEPALLATA-like MADS-domain transcription factors.
SEPALLATA3 and AGAMOUS tetramerization is required for floral meristem determinacy.
Title: Tetramerization of MADS family transcription factors SEPALLATA3 and AGAMOUS is required for floral meristem determinacy in Arabidopsis.
recognizes target DNA sequences by shape readout involving a conserved arginine residue in the MADS-domain
Title: The floral homeotic protein SEPALLATA3 recognizes target DNA sequences by shape readout involving a conserved arginine residue in the MADS-domain.
Cloning, prokaryotic expression and purification of CpfS1 (Sep3) protein from Arabidopsis thaliana has ben described.
Title: Cloning, Prokaryotic Expression and Purification of CpfS1 Gene from Arabidopsis Thaliana.
Authors analyzed the oligomeric status of SEP3 domains in the absence of the DNA-binding MADS-box domain
Title: Protein expression and characterization of SEP3 from Arabidopsis thaliana.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

NM_001198152.1

Supported by ESTs:

NM_102272.4

Supported by ESTs:

Gene Ontology Provided by TAIR

Function	Evidence Code	Pubs
enables DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables DNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	ISS Inferred from Sequence or Structural Similarity more info	PubMed
enables DNA-binding transcription factor activity	TAS Traceable Author Statement more info	PubMed
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein dimerization activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cell fate specification	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within flower development	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within mucilage extrusion from seed coat	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within plant ovule development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within seed coat development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within specification of floral organ identity	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within specification of floral organ number	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in nucleus	HDA more info	PubMed
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	ISM Inferred from Sequence Model more info

General protein information

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Preferred Names: K-box region and MADS-box transcription factor family protein

NP_001185081.1

SEPALLATA3 (SEP3); CONTAINS InterPro DOMAIN/s: Transcription factor, MADS-box (InterPro:IPR002100), Transcription factor, K-box (InterPro:IPR002487); BEST Arabidopsis thaliana protein match is: K-box region and MADS-box transcription factor family protein (TAIR:AT3G02310.1).

NP_564214.2

SEPALLATA3 (SEP3); FUNCTIONS IN: protein binding, DNA binding, sequence-specific DNA binding transcription factor activity; INVOLVED IN: in 6 processes; LOCATED IN: nucleus; EXPRESSED IN: 16 plant structures; EXPRESSED DURING: 7 growth stages; CONTAINS InterPro DOMAIN/s: Transcription factor, MADS-box (InterPro:IPR002100), Transcription factor, K-box (InterPro:IPR002487); BEST Arabidopsis thaliana protein match is: K-box region and MADS-box transcription factor family protein (TAIR:AT5G15800.1); Has 7376 Blast hits to 7375 proteins in 917 species: Archae - 0; Bacteria - 2; Metazoa - 632; Fungi - 302; Plants - 6358; Viruses - 0; Other Eukaryotes - 82 (source: NCBI BLink).

NP_850953.1

SEPALLATA3 (SEP3); FUNCTIONS IN: protein binding, DNA binding, sequence-specific DNA binding transcription factor activity; INVOLVED IN: in 6 processes; LOCATED IN: nucleus; EXPRESSED IN: 16 plant structures; EXPRESSED DURING: 7 growth stages; CONTAINS InterPro DOMAIN/s: Transcription factor, MADS-box (InterPro:IPR002100), Transcription factor, K-box (InterPro:IPR002487); BEST Arabidopsis thaliana protein match is: K-box region and MADS-box transcription factor family protein (TAIR:AT5G15800.1); Has 7422 Blast hits to 7421 proteins in 918 species: Archae - 0; Bacteria - 2; Metazoa - 630; Fungi - 302; Plants - 6411; Viruses - 0; Other Eukaryotes - 77 (source: NCBI BLink).

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_003070.9 Reference assembly

Range

8593536..8596123 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_180622.3 → NP_850953.1 K-box region and MADS-box transcription factor family protein [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_850953.1

Status: REVIEWED

UniProtKB/TrEMBL

A0A178W2I1

Conserved Domains (2) summary

cd00265
Location:2 → 76

MADS_MEF2_like; MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I ...

pfam01486
Location:94 → 175

K-box; K-box region
NM_102272.4 → NP_564214.2 K-box region and MADS-box transcription factor family protein [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_564214.2

Status: REVIEWED

UniProtKB/Swiss-Prot

O22456, Q8GWQ4, Q8L9R5

UniProtKB/TrEMBL

A0A178W378, A0A384L6U0, B4F7R9

Conserved Domains (2) summary

cd00265
Location:2 → 76

MADS_MEF2_like; MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I ...

pfam01486
Location:95 → 176

K-box; K-box region
NM_001198152.1 → NP_001185081.1 K-box region and MADS-box transcription factor family protein [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_001185081.1

Status: REVIEWED

UniProtKB/TrEMBL

F4I972

Conserved Domains (2) summary

cd00265
Location:2 → 76

MADS_MEF2_like; MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I ...

pfam01486
Location:95 → 160

K-box; K-box region