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 GSBRNA2T00028475001
Common NameGSBRNA2T00028475001
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: 293aa    MW: 33300.9 Da    PI: 10.0413
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00028475001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF95.42.5e-3065114150
                          S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
               SRF-TF   1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50 
                          krien++nrqvtf+kRrng+lKKA+EL vLCdaeva+i+fs++g+lyey+
  GSBRNA2T00028475001  65 KRIENSTNRQVTFCKRRNGLLKKAYELAVLCDAEVALIVFSTRGRLYEYA 114
                          79***********************************************8 PP
2K-box76.56.8e-261332344100
                K-box   4 ssgksleeakaeslqqelakLkkeienLqreqR..hllG...edLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelq 88 
                          +++ s++e +a+++qqe+akL+++i+++q+++R   + G   ++L+ L++keL+q+e++Lek++++iRskK+elll++ie+l k+e +l+
  GSBRNA2T00028475001 133 ANTHSVQEINAAYYQQESAKLRQQIQTIQNSNRlaAFSGifiNSLSALNVKELKQVENRLEKAISRIRSKKHELLLAEIENLHKREIKLD 222
                          455569999********************8888334456555799999****************************************** PP

                K-box  89 eenkaLrkklee 100
                          +e  +Lr+k++e
  GSBRNA2T00028475001 223 NESIYLRTKIAE 234
                          *********986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006633.34757117IPR002100Transcription factor, MADS-box
SMARTSM004325.1E-4057116IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.96E-3258139IPR002100Transcription factor, MADS-box
CDDcd002652.74E-4158131No hitNo description
PROSITE patternPS00350059113IPR002100Transcription factor, MADS-box
PRINTSPR004043.2E-325979IPR002100Transcription factor, MADS-box
PfamPF003194.8E-2666113IPR002100Transcription factor, MADS-box
PRINTSPR004043.2E-327994IPR002100Transcription factor, MADS-box
PRINTSPR004043.2E-3294115IPR002100Transcription factor, MADS-box
PfamPF014863.4E-18142232IPR002487Transcription factor, K-box
PROSITE profilePS5129712.191143238IPR002487Transcription 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: 293 aa     Download sequence    Send to blast
MRSNRTIMGE GEWQFRTTKN RFHVITGENT VVRKVTTTAP CNYYGFKEAL HILCTLIGRG  60
KIEIKRIENS TNRQVTFCKR RNGLLKKAYE LAVLCDAEVA LIVFSTRGRL YEYANDNIRA  120
TFERYKNSSS GNANTHSVQE INAAYYQQES AKLRQQIQTI QNSNRLAAFS GIFINSLSAL  180
NVKELKQVEN RLEKAISRIR SKKHELLLAE IENLHKREIK LDNESIYLRT KIAEVERFQQ  240
HHHQMVSGTE MTAIEALASR NYFAHNIMTI GSGSGAGHGC SYSDPDKKTH LG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-1957142189MEF2C
5f28_B1e-1957142189MEF2C
5f28_C1e-1957142189MEF2C
5f28_D1e-1957142189MEF2C
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.61371e-153seed
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor (Probable). Is required, together with TT16/AGL32 for the maternal control of endothelium formation, which is essential for female gametophyte development and fertilization, and seed formation (PubMed:22176531). {ECO:0000269|PubMed:22176531, ECO:0000305}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00028475001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKF8566161e-145KF856616.1 UNVERIFIED: Brassica oleracea var. viridis MADS box protein-like (AGL11) mRNA, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013626799.11e-162PREDICTED: agamous-like MADS-box protein AGL11
SwissprotQ388361e-126AGL11_ARATH; Agamous-like MADS-box protein AGL11
TrEMBLA0A078J3470.0A0A078J347_BRANA; BnaC03g72890D protein
STRINGBra000696.1-P1e-155(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM49942234
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G09960.11e-129MIKC_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. Ezquer I, et al.
    The Developmental Regulator SEEDSTICK Controls Structural and Mechanical Properties of the Arabidopsis Seed Coat.
    Plant Cell, 2016. 28(10): p. 2478-2492
    [PMID:27624758]