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 GSBRNA2T00116722001
Common NameGSBRNA2T00116722001
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: 257aa    MW: 29549.8 Da    PI: 9.8811
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00116722001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF99.81.1e-31958150
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                         krienk+nrqvtfskRrng+lKKA+ELSvLCdaeva+i+fss+gklye+ 
  GSBRNA2T00116722001  9 KRIENKINRQVTFSKRRNGLLKKAYELSVLCDAEVALIVFSSRGKLYEFG 58
                         79**********************************************95 PP
2K-box91.21.8e-30901741599
                K-box  15 eslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                           +++qe+akLk+++e+L r++RhllGed++++ +k+Lq Le+qLe +l+  R++K+++++e++e+l+kke++l ++nk+L+ k+e
  GSBRNA2T00116722001  90 LNWCQEVAKLKAKYESLVRTNRHLLGEDIGEMGVKQLQALERQLEAALTATRQRKTQVMMEEMEDLRKKERQLGDINKQLKIKFE 174
                          58*******************************************************************************9987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006633.389161IPR002100Transcription factor, MADS-box
SMARTSM004326.3E-42160IPR002100Transcription factor, MADS-box
CDDcd002654.21E-45272No hitNo description
SuperFamilySSF554553.01E-33283IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-32323IPR002100Transcription factor, MADS-box
PfamPF003192.1E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-322338IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-323859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129715.08489179IPR002487Transcription factor, K-box
PfamPF014862.2E-2891173IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009553Biological Processembryo sac development
GO:0009911Biological Processpositive regulation of flower development
GO:0010094Biological Processspecification of carpel identity
GO:0010228Biological Processvegetative to reproductive phase transition of meristem
GO:0010582Biological Processfloral meristem determinacy
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0048455Biological Processstamen formation
GO:0048459Biological Processfloral whorl structural organization
GO:0048509Biological Processregulation of meristem development
GO:0048833Biological Processspecification of floral organ number
GO:0080060Biological Processintegument development
GO:0080112Biological Processseed growth
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: 257 aa     Download sequence    Send to blast
MGRGRVEMKR IENKINRQVT FSKRRNGLLK KAYELSVLCD AEVALIVFSS RGKLYEFGSV  60
GVERTIERYH RCYNNLKSLN RHVYIRTLTL NWCQEVAKLK AKYESLVRTN RHLLGEDIGE  120
MGVKQLQALE RQLEAALTAT RQRKTQVMME EMEDLRKKER QLGDINKQLK IKFEAGGHAF  180
KSFQDFWPNS AASMMAGDPN NSKFPVQPSH PDSVDRNTEP FLQIGFQQHY YVQGEGSSVP  240
KSNVACETNF VQDWVL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-20169169MEF2C
5f28_B1e-20169169MEF2C
5f28_C1e-20169169MEF2C
5f28_D1e-20169169MEF2C
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.114460.0flower| leaf| seed
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Preferentially expressed in flowers.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. Forms a heterodimer via the K-box domain with AG, that could be involved in genes regulation during floral meristem development.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00315DAPTransfer from AT2G45650Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00116722001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ5084090.0AJ508409.1 Brassica oleracea var. botrytis mRNA for MADS-box protein AGL6-a (agl6-a gene), short splice variant.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009143157.11e-180PREDICTED: agamous-like MADS-box protein AGL6
RefseqXP_013752177.11e-180agamous-like MADS-box protein AGL6
RefseqXP_022574815.11e-180agamous-like MADS-box protein AGL6
SwissprotP293861e-158AGL6_ARATH; Agamous-like MADS-box protein AGL6
TrEMBLA0A3P5ZA510.0A0A3P5ZA51_BRACM; Uncharacterized protein
STRINGBo4g024840.11e-173(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM43022654
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G45650.11e-147AGAMOUS-like 6
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. Dreni L,Zhang D
    Flower development: the evolutionary history and functions of the AGL6 subfamily MADS-box genes.
    J. Exp. Bot., 2016. 67(6): p. 1625-38
    [PMID:26956504]