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 GSBRNA2T00117846001
Common NameGSBRNA2T00117846001
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: 259aa    MW: 29560.4 Da    PI: 9.2373
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00117846001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF96.71e-30959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krienk+nrqvtf+kRrng+lKKA+ELSvLCdae+a++ifs++gklye++s
  GSBRNA2T00117846001  9 KRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEIALLIFSNRGKLYEFCS 59
                         79***********************************************96 PP
2K-box86.74.6e-29821748100
                K-box   8 sleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 
                          ++++++ ++ +q++ kLk+++e Lq++qRhllGe++  + ++eL+qLe+q++ sl++iRs+K +++l+q+++l+ ke++l e+n++L++k
  GSBRNA2T00117846001  82 NQSAKDLQEKYQDYLKLKSRVEILQHSQRHLLGEEIAGMGVNELEQLERQVDASLRQIRSTKARFMLDQLSDLKTKEEMLLETNRDLKRK 171
                          3788899*********************************************************************************** PP

                K-box  98 lee 100
                          lee
  GSBRNA2T00117846001 172 LEE 174
                          987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.0E-41160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006633.137161IPR002100Transcription factor, MADS-box
CDDcd002652.26E-43276No hitNo description
SuperFamilySSF554553.14E-32279IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-32323IPR002100Transcription factor, MADS-box
PfamPF003191.8E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-322338IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-323859IPR002100Transcription factor, MADS-box
PfamPF014861.2E-2486172IPR002487Transcription factor, K-box
PROSITE profilePS5129714.49388178IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010076Biological Processmaintenance of floral meristem identity
GO:0048440Biological Processcarpel development
GO:0048441Biological Processpetal development
GO:0048442Biological Processsepal development
GO:0048443Biological Processstamen development
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: 259 aa     Download sequence    Send to blast
MGRGKVELKR IENKINRQVT FAKRRNGLLK KAYELSVLCD AEIALLIFSN RGKLYEFCSS  60
PSGMAKTIEK YRKHSYETMD PNQSAKDLQE KYQDYLKLKS RVEILQHSQR HLLGEEIAGM  120
GVNELEQLER QVDASLRQIR STKARFMLDQ LSDLKTKEEM LLETNRDLKR KLEENDATVT  180
QSLWGASSFA EHSQQQQQQQ GMSSYQTNLP TQEVGFFKPL QGNVAWQMSH YNPGVTNASD  240
SATTSQNVIN GFFPGWTV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ox0_A2e-239317222101Developmental protein SEPALLATA 3
4ox0_B2e-239317222101Developmental protein SEPALLATA 3
4ox0_C2e-239317222101Developmental protein SEPALLATA 3
4ox0_D2e-239317222101Developmental protein SEPALLATA 3
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in aerial vegetative organs and flowers, but not in roots (PubMed:7632923). Expressed in flower primordia (PubMed:15530395). {ECO:0000269|PubMed:15530395, ECO:0000269|PubMed:7632923}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that binds specifically to the CArG box DNA sequence 5'-CC (A/T)6 GG-3' (PubMed:7632923, PubMed:25183521). Plays an important role in the determination of flower meristem identity. Involved in the specification of sepal identity. Contributes to the development of petals, stamens and carpels (PubMed:15530395). {ECO:0000269|PubMed:15530395, ECO:0000269|PubMed:25183521, ECO:0000269|PubMed:7632923}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00030SELEXTransfer from AT2G03710Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00117846001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ5080520.0AJ508052.1 Brassica oleracea var. botrytis mRNA for MADS-box protein AGL3-a (agl3-a gene).
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013723133.10.0agamous-like MADS-box protein AGL3
SwissprotP293831e-157AGL3_ARATH; Agamous-like MADS-box protein AGL3
TrEMBLA0A397XVH40.0A0A397XVH4_BRACM; Uncharacterized protein
STRINGBra017376.1-P1e-178(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM71352440
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G03710.21e-160MIKC_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. Maejima K, et al.
    Degradation of class E MADS-domain transcription factors in Arabidopsis by a phytoplasmal effector, phyllogen.
    Plant Signal Behav, 2015. 10(8): p. e1042635
    [PMID:26179462]