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 GSBRNA2T00050088001
Common NameGSBRNA2T00050088001, LOC106360073, LOC106360130
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: 246aa    MW: 28293.1 Da    PI: 8.4334
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00050088001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF92.12.7e-29959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krien++nrqvtf+kRr g+lKKA+ELSvLCdaeva+iifs++gkl+e++s
  GSBRNA2T00050088001  9 KRIENTINRQVTFAKRRGGVLKKAYELSVLCDAEVALIIFSNRGKLFEFCS 59
                         79***********************************************96 PP
2K-box92.19.7e-31931751698
                K-box  16 slqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                          s+qqe+ kLk++++ Lqr+qR+llGedL++Ls keL++Le+qL++slk+iR  +++++l+q+++lq ke++l+++nk+Lr +l
  GSBRNA2T00050088001  93 SSQQEYLKLKQRYDALQRTQRNLLGEDLGPLSTKELESLERQLDSSLKQIRGLRTQFMLDQLNDLQSKERMLSDTNKTLRLRL 175
                          68*****************************************************************************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004328.8E-39160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006632.198161IPR002100Transcription factor, MADS-box
SuperFamilySSF554553.79E-32278IPR002100Transcription factor, MADS-box
CDDcd002653.90E-43276No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004043.9E-31323IPR002100Transcription factor, MADS-box
PfamPF003198.1E-241057IPR002100Transcription factor, MADS-box
PRINTSPR004043.9E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004043.9E-313859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129714.83991181IPR002487Transcription factor, K-box
PfamPF014867.3E-2694175IPR002487Transcription 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: 246 aa     Download sequence    Send to blast
MGRGRVELKR IENTINRQVT FAKRRGGVLK KAYELSVLCD AEVALIIFSN RGKLFEFCSN  60
SSMLKTLERY QKCNYGPPEP NVPSREALAV ELSSQQEYLK LKQRYDALQR TQRNLLGEDL  120
GPLSTKELES LERQLDSSLK QIRGLRTQFM LDQLNDLQSK ERMLSDTNKT LRLRLADGYQ  180
MPFQLNPNQE EVHVDYGHHQ PQQQAFFQPL EYEPIFQIGY HQGQQQDHGM GAGPSANNYM  240
LGWLP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ox0_A8e-64751781104Developmental protein SEPALLATA 3
4ox0_B8e-64751781104Developmental protein SEPALLATA 3
4ox0_C8e-64751781104Developmental protein SEPALLATA 3
4ox0_D8e-64751781104Developmental protein SEPALLATA 3
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.93720.0seed
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor active in inflorescence development and floral organogenesis.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00050088001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKC9679600.0KC967960.1 Brassica oleracea var. viridis SEP3 (SEP3) mRNA, complete cds.
GenBankY086260.0Y08626.1 S.alba mRNA for MADS D protein.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013655129.10.0agamous-like MADS-box protein AGL9 homolog isoform X1
RefseqXP_013655177.10.0agamous-like MADS-box protein AGL9 homolog isoform X1
SwissprotO040671e-157AGL9_SINAL; Agamous-like MADS-box protein AGL9 homolog
TrEMBLA0A078FFT00.0A0A078FFT0_BRANA; BnaC03g57540D protein
STRINGBo3g141410.11e-180(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM62202644
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G24260.21e-147MIKC_MADS family protein
Publications ? help Back to Top
  1. 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]
  2. Bonhomme F,Sommer H,Bernier G,Jacqmard A
    Characterization of SaMADS D from Sinapis alba suggests a dual function of the gene: in inflorescence development and floral organogenesis.
    Plant Mol. Biol., 1997. 34(4): p. 573-82
    [PMID:9247539]