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Gene : SEP3 A. thaliana

Gene ID  ? AT1G24260
Brief Description  K-box region and MADS-box transcription factor family protein  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? 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).  Source: TAIR, Jun 30, 2015.
Curator 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.  Source: TAIR, Jun 30, 2015.
Name  ? SEPALLATA3
  • synonyms:
  • AGAMOUS-like 9,
  • AGL9

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12 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
In order to uncover new roles of SEP3 we studied in detail the phenotypes produced by 35S::SEP3 in different wild type and mutant backgrounds. [SEPALLATA3] [SEP3] 16098111
These experiments indicate that the ectopic co-expression of SEPALLATA3 and SHATTERPROOF1 and/or SEEDSTICK is probably not sufficient to homeotically transform vegetative tissues into carpels with ovules. 16515858
Evidence that in vitro homotetramers of the class E floral homeotic protein SEPALLATA3 from Arabidopsis thaliana bind cooperatively to two sequence elements termed 'CArG boxes' in a phase-dependent manner involving DNA looping. 19033361
higher-order complex formation is a general and essential molecular mechanism for plant MADS box protein functioning and SEP3 'glue' protein plays a pivotal role in mediating multimerization 19243611
SEPALLATA3 integrates and modulates different growth-related and hormonal pathways in a combinatorial fashion with other MADS-box proteins and possibly with non-MADS transcription factors. 19385720
The SWI2/SNF2 ATPases physically interact with two direct transcriptional activators of class B and class C gene expression, LEAFY (LFY) and SEPALLATA3 (SEP3). 22323601
Antagonistic roles of SEPALLATA3, FT and FLC genes as targets of the polycomb group gene CURLY LEAF 22363474
Approximately 90% of the binding sites of two well-characterized MADS domain transcription factors, APETALA1 and SEPALLATA3, were covered by the DNase I hypersensitive (DH) sites. 22773751
Here, we show that SEP3 as a downstream gene of SQUAMOSA PROMOTER BINDING PROTEIN-LIKE3 (SPL3) and FT modulates the flowering time in response to different ambient temperatures. 22899051
Data indicate that SEEDSTICK (STK) and SEPALLATA3 (SEP3) dimers can induce loop formation in the VERDANDI (VDD) promoter by binding to two nearby CC(A/T)6GG (CArG) boxes essential for promoter activity. 23847151
SEP3 is a member of the MADS transcription factor family and plays a role in the development of the floral organs through the formation of multiprotein complexes with other MADS-family transcription factors. 23989147
The 2.5-A crystal structure of a small portion of the intervening and the complete keratin-like domain of SEP3, is reported. 25228343

Genomics

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12 Flanking Regions

Flank size: from most upstream transcription start site, or most downstream transcription stop site

Region Name Flank Size Direction Length Gene Included? Chromosome Location
AT1G24260 0.5kb upstream 0.5kb upstream 3088   true Chr1: 8593536-8596623
AT1G24260 0.5kb upstream 0.5kb upstream 500   false Chr1: 8596124-8596623
AT1G24260 0.5kb downstream 0.5kb downstream 3088   true Chr1: 8593036-8596123
AT1G24260 0.5kb downstream 0.5kb downstream 500   false Chr1: 8593036-8593535
AT1G24260 1.0kb upstream 1.0kb upstream 3588   true Chr1: 8593536-8597123
AT1G24260 1.0kb upstream 1.0kb upstream 1000   false Chr1: 8596124-8597123
AT1G24260 1.0kb downstream 1.0kb downstream 3588   true Chr1: 8592536-8596123
AT1G24260 1.0kb downstream 1.0kb downstream 1000   false Chr1: 8592536-8593535
AT1G24260 3.0kb upstream 3.0kb upstream 5588   true Chr1: 8593536-8599123
AT1G24260 3.0kb upstream 3.0kb upstream 3000   false Chr1: 8596124-8599123
AT1G24260 3.0kb downstream 3.0kb downstream 5588   true Chr1: 8590536-8596123
AT1G24260 3.0kb downstream 3.0kb downstream 3000   false Chr1: 8590536-8593535

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11 Data Sets

Name Description Version
BAR Annotations Lookup Mapping(s) between AGI locus and Affy Probeset identifier 10/08/2013
Genome Annotation Araport11 protein-coding, non-coding and transposable element genes Araport11 (06/2016)
RNA-seq expression Measure of gene expression levels (Transcripts per Million, TPM) quantified by Salmon Araport11 (06/2016)
PubMed to gene mapping Curated associations between publications and NCBI Gene records 8/12/2016
GO Annotation from UniProt GO annotations assigned by UniProt 8/01/2016
PO Annotation from TAIR Literature-based annotations of genes to Plant Ontology (PO) terms 06/30/2015
Swiss-Prot data set High-quality, manually annotated, non-redundant protein sequence database 2016_07
Panther data set PANTHER paralogs from Arabidopsis 11.0
GeneRIF Concise phrase describing gene function and publication associated with NCBI Gene records 8/12/2016
IntAct interactions data set Curated binary and complex protein-protein interactions for Arabidopsis thaliana 8/02/2016
BioGRID interaction data set Curated set of genetic and physical interactions for Arabidopsis thaliana 3.4.139