PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GSBRNA2T00071267001
Common NameGSBRNA2T00071267001, LOC106357060
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: 218aa    MW: 25056.7 Da    PI: 9.786
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00071267001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF95.72.1e-30959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krien + rqvtfskRrng+lKKA+ELSvLCdaeva++ifs++gklye+ss
  GSBRNA2T00071267001  9 KRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALVIFSPRGKLYEFSS 59
                         79***********************************************96 PP
2K-box74.33.4e-2582172999
                K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                          + e ++++ + e   L ++ie+L+ ++R++lGe+L+  s++eLqqLe+qLe+sl+kiR+kK++ll+e++++l++ke++l  enk+L +k+
  GSBRNA2T00071267001  82 KREDNTQQAKGETYGLARKIEQLEISKRKFLGEGLDASSIEELQQLENQLERSLTKIRAKKYQLLREELDKLKEKERNLTAENKMLLEKY 171
                          67889999*******************************************************************************998 PP

                K-box  99 e 99 
                          e
  GSBRNA2T00071267001 172 E 172
                          6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004324.9E-41160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.903161IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004046.3E-31323IPR002100Transcription factor, MADS-box
CDDcd002657.04E-40379No hitNo description
SuperFamilySSF554556.28E-32374IPR002100Transcription factor, MADS-box
PfamPF003195.7E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004046.3E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004046.3E-313859IPR002100Transcription factor, MADS-box
PfamPF014862.2E-2483171IPR002487Transcription factor, K-box
PROSITE profilePS5129714.8787177IPR002487Transcription 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: 218 aa     Download sequence    Send to blast
MVRGKTEMKR IENATSRQVT FSKRRNGLLK KAFELSVLCD AEVALVIFSP RGKLYEFSSS  60
SSITKTVERY QKRIHDLGSS HKREDNTQQA KGETYGLARK IEQLEISKRK FLGEGLDASS  120
IEELQQLENQ LERSLTKIRA KKYQLLREEL DKLKEKERNL TAENKMLLEK YEMGRGGIIP  180
KTTSEDLDTE ESEMEVVTDL LIGPPPIRHY KKFHPPN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-16160160MEF2C
5f28_B2e-16160160MEF2C
5f28_C2e-16160160MEF2C
5f28_D2e-16160160MEF2C
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.130611e-128microspore
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During floral transition, expressed very early at the flanks of the inflorescence meristem in the anlagens upon the transition to flowering Subsequently, expression levels increase in the first and second stages of the floral meristem and at stage 3, expression is restricted to the L1 and L2 layers. Later on, expressed in the gynoecium and stamen primordia at stage 6. {ECO:0000269|PubMed:25636918}.
UniprotTISSUE SPECIFICITY: Preferentially expressed in roots (PubMed:7549482). Expressed in lateral root cap, root epidermis, root endodermis, columella of the root meristematic region, the vascular cylinder in differentiated zones of the primary root and in emerged lateral root primordia (PubMed:24121311). Expressed in pollen (PubMed:12949148). {ECO:0000269|PubMed:12949148, ECO:0000269|PubMed:24121311, ECO:0000269|PubMed:7549482}.
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator that regulates root development by controlling meristem size and patterning of the root apical meristem. Regulates auxin transport and gradients in the root meristematic cells via direct regulation of the auxin efflux carrier PIN1 and PIN4 gene expression. Binds specifically to the CArG-box DNA sequences in the promoter regions of PIN1 and PIN4 genes (PubMed:24121311). Involved in the regulation of shoot apical meristem (SAM) cell identities and transitions. Promotes flowering transition and participates in flower meristem maintenance and determinacy. Positively regulates TFL1 and WUS expression. Binds directly to the TFL1 regulatory sequences (PubMed:25636918). {ECO:0000269|PubMed:24121311}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00071267001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. {ECO:0000269|PubMed:24121311}.
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_013609175.11e-157PREDICTED: agamous-like MADS-box protein AGL14
RefseqXP_013609176.11e-157PREDICTED: agamous-like MADS-box protein AGL14
RefseqXP_013609177.11e-157PREDICTED: agamous-like MADS-box protein AGL14
RefseqXP_013609178.11e-157PREDICTED: agamous-like MADS-box protein AGL14
RefseqXP_013652201.11e-157agamous-like MADS-box protein AGL14
RefseqXP_013652202.11e-157agamous-like MADS-box protein AGL14
RefseqXP_013652203.11e-157agamous-like MADS-box protein AGL14
RefseqXP_013652204.11e-157agamous-like MADS-box protein AGL14
SwissprotQ388381e-114AGL14_ARATH; Agamous-like MADS-box protein AGL14
TrEMBLA0A078FK041e-156A0A078FK04_BRANA; BnaC09g23670D protein
TrEMBLA0A0D3E9E21e-156A0A0D3E9E2_BRAOL; Uncharacterized protein
TrEMBLA0A3P6EA191e-156A0A3P6EA19_BRAOL; Uncharacterized protein
STRINGBo9g093920.11e-157(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM7828413
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G11880.12e-97AGAMOUS-like 14
Publications ? help Back to Top
  1. Zimmermann P,Hirsch-Hoffmann M,Hennig L,Gruissem W
    GENEVESTIGATOR. Arabidopsis microarray database and analysis toolbox.
    Plant Physiol., 2004. 136(1): p. 2621-32
    [PMID:15375207]
  2. 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]
  3. 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]
  4. Qu Y, et al.
    Peroxisomal CuAOζ and its product H2O2 regulate the distribution of auxin and IBA-dependent lateral root development in Arabidopsis.
    J. Exp. Bot., 2017. 68(17): p. 4851-4867
    [PMID:28992128]