PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GSBRNA2T00022303001
Common NameGSBRNA2T00022303001
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family MIKC_MADS
Protein Properties Length: 251aa    MW: 28524.5 Da    PI: 8.3466
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00022303001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF98.82.2e-31959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krienk+nrqvtf+kRrng+lKKA+ELSvLCdaev++i+fs++gklye++s
  GSBRNA2T00022303001  9 KRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVSLIVFSNRGKLYEFCS 59
                         79***********************************************96 PP
2K-box91.12e-3079173599
                K-box   5 sgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaL 94 
                          + +++ +++ e++++e+ kLk ++enLq +qR+llGedL++L+ keL+qLe+qL+ slk++R  K++++l+q+ +lq ke++l e+n+aL
  GSBRNA2T00022303001  79 EVNNKPAKELENSYREYLKLKGRYENLQLQQRNLLGEDLGPLNSKELEQLERQLDGSLKQVRCIKTQYMLDQLTDLQGKEHMLLEANRAL 168
                          5566788999******************************************************************************** PP

                K-box  95 rkkle 99 
                          + kle
  GSBRNA2T00022303001 169 SIKLE 173
                          99987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006633.319161IPR002100Transcription factor, MADS-box
SMARTSM004324.2E-41160IPR002100Transcription factor, MADS-box
CDDcd002651.26E-45277No hitNo description
SuperFamilySSF554557.98E-34279IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004041.8E-32323IPR002100Transcription factor, MADS-box
PfamPF003199.9E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004041.8E-322338IPR002100Transcription factor, MADS-box
PRINTSPR004041.8E-323859IPR002100Transcription factor, MADS-box
PfamPF014864.7E-2485172IPR002487Transcription factor, K-box
PROSITE profilePS5129714.26488178IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 251 aa     Download sequence    Send to blast
MGRGRVELKR IENKINRQVT FAKRRNGLLK KAYELSVLCD AEVSLIVFSN RGKLYEFCST  60
SNMLKTLDRY QKCSYGSVEV NNKPAKELEN SYREYLKLKG RYENLQLQQR NLLGEDLGPL  120
NSKELEQLER QLDGSLKQVR CIKTQYMLDQ LTDLQGKEHM LLEANRALSI KLEDMIGMRS  180
HHVGGAWEGG DQQNVAYGHH QTQPQGLFQS LECDPTLQIG YNHPVCSEQM AVTTQGPSQP  240
GNGYIPGWML *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ox0_A1e-32751741103Developmental protein SEPALLATA 3
4ox0_B1e-32751741103Developmental protein SEPALLATA 3
4ox0_C1e-32751741103Developmental protein SEPALLATA 3
4ox0_D1e-32751741103Developmental protein SEPALLATA 3
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.96110.0flower| seed
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed early during flower development.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. Functions with SEPALLATA1/AGL2 and SEPALLATA3/AGL9 to ensure proper development of petals, stamens and carpels and to prevent the indeterminate growth of the flower meristem. Forms a heterodimer via the K-box domain with AG, that could be involved in genes regulation during floral meristem development.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00022303001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKC9679590.0KC967959.1 Brassica oleracea var. viridis SEP2.b (SEP2.b) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009147359.10.0PREDICTED: developmental protein SEPALLATA 2-like
SwissprotP293841e-172SEP2_ARATH; Developmental protein SEPALLATA 2
TrEMBLA0A078J4A30.0A0A078J4A3_BRANA; BnaA05g33600D protein
STRINGBra039170.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM32892765
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G02310.11e-175MIKC_MADS family protein
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  3. Maejima K, et al.
    Degradation of class E MADS-domain transcription factors in Arabidopsis by a phytoplasmal effector, phyllogen.
    Plant Signal Behav, 2015. 10(8): p. e1042635
    [PMID:26179462]
  4. Wang X, et al.
    An exon skipping in a SEPALLATA-Like gene is associated with perturbed floral and fruits development in cucumber.
    J Integr Plant Biol, 2016. 58(9): p. 766-71
    [PMID:26936301]
  5. Li D, et al.
    FAR-RED ELONGATED HYPOCOTYL3 activates SEPALLATA2 but inhibits CLAVATA3 to regulate meristem determinacy and maintenance in Arabidopsis.
    Proc. Natl. Acad. Sci. U.S.A., 2016. 113(33): p. 9375-80
    [PMID:27469166]