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 GSBRNA2T00047455001
Common NameGSBRNA2T00047455001
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: 193aa    MW: 21496.4 Da    PI: 6.5594
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00047455001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF64.61e-20956148
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEE CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklye 48
                         k ienks rqvtfskRr+g++ KA  LSvLC+  vav+++s +gkly 
  GSBRNA2T00047455001  9 KLIENKSSRQVTFSKRRTGLIEKARQLSVLCESSVAVLVVSASGKLYN 56
                         569*******************************************97 PP
2K-box37.69.7e-141021643698
                K-box  36 RhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                           +l   +++s s+  L +Le+qLe++l+  R++K+el +e ++ lq+ke+ l+een  L +++
  GSBRNA2T00047455001 102 SNLEEPNVDSVSVDSLISLEDQLETALSATRARKTELTMEFVKMLQEKEELLREENLVLVSQI 164
                          55555678899*********************************************9999887 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006627.081161IPR002100Transcription factor, MADS-box
SuperFamilySSF554553.92E-25173IPR002100Transcription factor, MADS-box
SMARTSM004321.8E-30160IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004048.9E-22323IPR002100Transcription factor, MADS-box
PfamPF003192.0E-201155IPR002100Transcription factor, MADS-box
PRINTSPR004048.9E-222338IPR002100Transcription factor, MADS-box
PRINTSPR004048.9E-223859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129710.2380170IPR002487Transcription factor, K-box
PfamPF014861.3E-10104163IPR002487Transcription 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: 193 aa     Download sequence    Send to blast
MGRRKVEIKL IENKSSRQVT FSKRRTGLIE KARQLSVLCE SSVAVLVVSA SGKLYNSSSG  60
DNMTNIVDRY EIQHAGELRS LDLAEKTRNY LPHKELLESV KSNLEEPNVD SVSVDSLISL  120
EDQLETALSA TRARKTELTM EFVKMLQEKE ELLREENLVL VSQIGTTNGR RENNSPVNSS  180
GINPPETLPL LK*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.134830.0flower| seed
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Mostly expressed in roots, leaves and flowers, and, to a lower extent, in inflorescence, siliques, pollen and shoots. {ECO:0000269|PubMed:12837945, ECO:0000269|PubMed:12949148}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the negative regulation of flowering time, probably through the photoperiodic and vernalization pathways; more efficient in cv. Landsberg erecta than in cv. Columbia background. Prevents premature flowering (PubMed:12724541, PubMed:25339407). Involved in the modulation of vernalization impact on flowering according to genotype acclimation to altitude (PubMed:25339407). {ECO:0000269|PubMed:12724541, ECO:0000269|PubMed:25339407}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00047455001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed during vernalization (PubMed:12724541). Regulated by HAM1 and HAM2 via epigenetic modification of chromatins at H4K5 acetylation during flowering (PubMed:23273925). {ECO:0000269|PubMed:12724541, ECO:0000269|PubMed:23273925}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009130486.11e-135PREDICTED: agamous-like MADS-box protein AGL27 isoform X1
SwissprotQ9LSR72e-90AGL70_ARATH; Agamous-like MADS-box protein AGL70
TrEMBLA0A078GXS51e-134A0A078GXS5_BRANA; BnaA02g34510D protein
TrEMBLA0A3G5BC841e-134A0A3G5BC84_BRARC; Maf-like protein
STRINGBo2g166500.11e-124(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM9861987
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G77080.41e-65MIKC_MADS family protein
Publications ? help Back to Top
  1. Conte MG,Gaillard S,Droc G,Perin C
    Phylogenomics of plant genomes: a methodology for genome-wide searches for orthologs in plants.
    BMC Genomics, 2008. 9: p. 183
    [PMID:18426584]
  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. Suter L,Rüegg M,Zemp N,Hennig L,Widmer A
    Gene regulatory variation mediates flowering responses to vernalization along an altitudinal gradient in Arabidopsis.
    Plant Physiol., 2014. 166(4): p. 1928-42
    [PMID:25339407]
  4. Nasim Z,Fahim M,Ahn JH
    Possible Role of MADS AFFECTING FLOWERING 3 and B-BOX DOMAIN PROTEIN 19 in Flowering Time Regulation of Arabidopsis Mutants with Defects in Nonsense-Mediated mRNA Decay.
    Front Plant Sci, 2017. 8: p. 191
    [PMID:28261246]