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 GSBRNA2T00006113001
Common NameGSBRNA2T00006113001
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: 238aa    MW: 27174 Da    PI: 9.404
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00006113001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF99.99.6e-32958150
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                         krienk+nrqvtfskRrng+lKKA+ELSvLCdaeva+i+fss+gklye+ 
  GSBRNA2T00006113001  9 KRIENKINRQVTFSKRRNGLLKKAYELSVLCDAEVALIVFSSRGKLYEFG 58
                         79**********************************************95 PP
2K-box93.92.6e-31671561099
                K-box  10 eeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                          e  +  +++qe+akLk+++e+L r++RhllGed++++ +k+Lq Le+qLe +l+  R++K+++++e++e+l+kke++l ++nk+L+ k+e
  GSBRNA2T00006113001  67 ERLNRHNWCQEVAKLKAKYESLVRTNRHLLGEDIGEMGVKQLQALERQLEAALTATRQRKTQVMMEEMEDLRKKERQLGDINKQLKIKFE 156
                          5567889*******************************************************************************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
SuperFamilySSF554556.15E-32277IPR002100Transcription factor, MADS-box
CDDcd002657.54E-44273No hitNo description
PRINTSPR004049.6E-33323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.9E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004049.6E-332338IPR002100Transcription factor, MADS-box
PRINTSPR004049.6E-333859IPR002100Transcription factor, MADS-box
PfamPF014868.4E-2970155IPR002487Transcription factor, K-box
PROSITE profilePS5129714.99971161IPR002487Transcription 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: 238 aa     Download sequence    Send to blast
MGRGRVEMKR IENKINRQVT FSKRRNGLLK KAYELSVLCD AEVALIVFSS RGKLYEFGSV  60
GVERTIERLN RHNWCQEVAK LKAKYESLVR TNRHLLGEDI GEMGVKQLQA LERQLEAALT  120
ATRQRKTQVM MEEMEDLRKK ERQLGDINKQ LKIKFEAGGH AFKSFQDFWP NSAASMAGDP  180
NNSKFPVQPS HPDSVDCNTE PFLQIGFQQH YYVQGEGSSV PKSNVACETN FVQDWFL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-20173173MEF2C
5f28_B1e-20173173MEF2C
5f28_C1e-20173173MEF2C
5f28_D1e-20173173MEF2C
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.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00006113001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
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_013691306.11e-172agamous-like MADS-box protein AGL6
SwissprotP293861e-155AGL6_ARATH; Agamous-like MADS-box protein AGL6
TrEMBLA0A078G0U21e-178A0A078G0U2_BRANA; BnaC04g04390D protein
STRINGBo4g024840.11e-171(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-145AGAMOUS-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]