PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GSBRNA2T00035264001
Common NameGSBRNA2T00035264001, LOC106424775
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: 255aa    MW: 28863.7 Da    PI: 8.5655
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00035264001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF98.72.3e-31959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krienk+nrqvtf+kRrng+lKKA+ELS+LCdaeva+iifs++gklye++s
  GSBRNA2T00035264001  9 KRIENKINRQVTFAKRRNGLLKKAYELSILCDAEVALIIFSNRGKLYEFCS 59
                         79***********************************************96 PP
2K-box95.86.6e-3278173499
                K-box   4 ssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenka 93 
                           + +++ +++ e++++e+ kLk ++e+Lqr+qR+llGedL++L+ keL+qLe+qL+ slk++Rs K++++l+q+++lq ke++l e+n+a
  GSBRNA2T00035264001  78 IEVNNKPAKELENSYREYLKLKGRYESLQRQQRNLLGEDLGPLNSKELEQLERQLDGSLKQVRSIKTQYMLDQLSDLQSKEQMLLETNRA 167
                          56667788999******************************************************************************* PP

                K-box  94 Lrkkle 99 
                          L  kl+
  GSBRNA2T00035264001 168 LAIKLD 173
                          *98876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006633.333161IPR002100Transcription factor, MADS-box
SMARTSM004323.2E-41160IPR002100Transcription factor, MADS-box
CDDcd002652.53E-45277No hitNo description
SuperFamilySSF554559.42E-34280IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-32323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003192.6E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-322338IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-323859IPR002100Transcription factor, MADS-box
PfamPF014861.4E-2585172IPR002487Transcription factor, K-box
PROSITE profilePS5129714.58888178IPR002487Transcription 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: 255 aa     Download sequence    Send to blast
MGRGRVELKR IENKINRQVT FAKRRNGLLK KAYELSILCD AEVALIIFSN RGKLYEFCSS  60
SNMIKTLERY QKCSYGSIEV NNKPAKELEN SYREYLKLKG RYESLQRQQR NLLGEDLGPL  120
NSKELEQLER QLDGSLKQVR SIKTQYMLDQ LSDLQSKEQM LLETNRALAI KLDDMIGVRS  180
HHMGGGGGGG WEGNEQNVSY EHHHQAQPQG LFQPLECNPT LQIGYDNPVG SEQITATTQA  240
QAQPGNGYIP GWML*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ox0_A3e-35751741103Developmental protein SEPALLATA 3
4ox0_B3e-35751741103Developmental protein SEPALLATA 3
4ox0_C3e-35751741103Developmental protein SEPALLATA 3
4ox0_D3e-35751741103Developmental protein SEPALLATA 3
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.101560.0flower| seed
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed early during flower development.
UniprotTISSUE SPECIFICITY: Expressed mainly in carpels, and weakly in stamens.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. Functions with SEPALLATA2/AGL4 and SEPALLATA3/AGL9 to ensure proper development of petals, stamens and carpels, and to prevent the indeterminate growth of the flower meristem. Forms a heterodimer via the K-box domain with AGAMOUS, that could be involved in genes regulation during floral meristem development.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00035264001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ5080530.0AJ508053.1 Brassica oleracea var. botrytis mRNA for MADS-box protein SEP1-a (sep1-a gene).
GenBankKC9679570.0KC967957.1 Brassica oleracea var. viridis SEP1.a (SEP1.a) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013720978.10.0developmental protein SEPALLATA 1
SwissprotP293821e-156SEP1_ARATH; Developmental protein SEPALLATA 1
TrEMBLA0A078GMN10.0A0A078GMN1_BRANA; BnaC09g42060D protein
STRINGBo9g163790.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM32892765
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G15800.11e-158MIKC_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]