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 GSBRNA2T00052639001
Common NameGSBRNA2T00052639001
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 M-type_MADS
Protein Properties Length: 112aa    MW: 12899.8 Da    PI: 10.0841
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00052639001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF90.49.2e-29959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         k+ien++ rqvtfskRr g+lKKA+ELSvLCda+va iifs++g+ly+++s
  GSBRNA2T00052639001  9 KKIENTTSRQVTFSKRRSGLLKKAHELSVLCDAQVAAIIFSQKGRLYDFAS 59
                         78***********************************************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.525161IPR002100Transcription factor, MADS-box
SMARTSM004324.8E-40160IPR002100Transcription factor, MADS-box
PRINTSPR004043.0E-30323IPR002100Transcription factor, MADS-box
SuperFamilySSF554559.55E-32387IPR002100Transcription factor, MADS-box
CDDcd002651.77E-41374No hitNo description
PfamPF003197.5E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004043.0E-302338IPR002100Transcription factor, MADS-box
PRINTSPR004043.0E-303859IPR002100Transcription factor, MADS-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:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 112 aa     Download sequence    Send to blast
MVRGKIQIKK IENTTSRQVT FSKRRSGLLK KAHELSVLCD AQVAAIIFSQ KGRLYDFASS  60
DIQKTIKRYA EYKGEYFVAE SHPTEQYVQV SFYISVLSHF YVSSITYRNL Y*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-21172172MEF2C
5f28_B1e-21172172MEF2C
5f28_C1e-21172172MEF2C
5f28_D1e-21172172MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in the shoot apical meristem (SAM) during the vegetative phase and the floral transition. After floral transition, expressed in apical meristem (AM), inflorescence meristem (IM) and floral primordia. {ECO:0000269|PubMed:21609362}.
Functional Description ? help Back to Top
Source Description
UniProtMADS-box transcription factor that acts with AGL42 and AGL71 in the control of flowering time. Promotes flowering at the shoot apical and axillary meristems. Seems to act through a gibberellin-dependent pathway. Interacts genetically with SOC1 and its expression is directly regulated by SOC1. {ECO:0000269|PubMed:21609362}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00052639001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2324394e-92AC232439.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB003D07, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013614333.14e-59PREDICTED: MADS-box protein SOC1-like
RefseqXP_013614334.14e-59PREDICTED: MADS-box protein SOC1-like
RefseqXP_013680791.14e-59MADS-box protein AGL72-like
RefseqXP_022553173.11e-59MADS-box protein AGL72-like
RefseqXP_022569227.11e-59MADS-box protein AGL72-like
SwissprotQ9FLH52e-52AGL72_ARATH; MADS-box protein AGL72
TrEMBLA0A078H5A35e-75A0A078H5A3_BRANA; BnaC03g15820D protein
STRINGBra029155.1-P2e-57(Brassica rapa)
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
AT5G51860.25e-55MIKC_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]