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 GSBRNA2T00018993001
Common NameGSBRNA2T00018993001
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 bHLH
Protein Properties Length: 353aa    MW: 37674.7 Da    PI: 6.9906
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00018993001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH50.92.8e-16176222455
                          HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
                  HLH   4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                           hn  E+rRR+riN+++  L++l+P++      K +Ka++L +A+eY+k+Lq
  GSBRNA2T00018993001 176 VHNLSEKRRRSRINEKMKALQSLIPNS-----NKTDKASMLDEAIEYLKQLQ 222
                          6*************************7.....5******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000832.46E-18168226No hitNo description
SuperFamilySSF474594.45E-20170232IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088818.063172221IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.101.5E-19173232IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000109.6E-14176222IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003534.0E-18178227IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007623Biological Processcircadian rhythm
GO:0009409Biological Processresponse to cold
GO:0010114Biological Processresponse to red light
GO:0010154Biological Processfruit development
GO:0010187Biological Processnegative regulation of seed germination
GO:0048440Biological Processcarpel development
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 353 aa     Download sequence    Send to blast
MADKKLIPSS SSTTSIYDTR SSNNSNHHPP SSSDEISLFL RHIINRSSSP LPSHYSPATA  60
STAEIGVNAD PHADNPRCFV SPQTSKRAAD YSEVLIGSGV GSSSAAACYG FSGGGGNNVA  120
QGNSSGTRVS SSSVGASGNE TDEYDCESEE GVEAVVDDEL LCKSRTSSKR CRAAEVHNLS  180
EKRRRSRINE KMKALQSLIP NSNKTDKASM LDEAIEYLKQ LQLQVQMLTM RNGVNLHPLC  240
LPGTTLHPLQ LSQLRLGVPP EATNDSLFNH TNHFASTSNA PAMVNTGASS YALEPSIRSH  300
FGPFPLLTSP AEMSVEGGLT HPRLNIGHSN TNLTGRQAVF NGQQPDIKDR LN*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During flower initiation, expressed in the peripheral zone of the shoot apical meristem. Confined to the anlagen of successive flower buds yet to arise. Later expressed in abaxial and adaxial sepal primordia, but not in sepals. When sepals initiate, localized in the region interior to them. Within the gynoecium, detected in the initiating and developing medial regions, and then in the developing septum and stigma. SPT expression also occurs in sub-regions of developing ovules, and in the wall and dehiscence zone of the maturing fruit. As the petals develop, becomes restricted to the adaxial epidermis. In stamen expression increase in the vicinity of the archesporial cells and in cells undergoing divisions to produce sporogenous and secondary parietal cells of the anther locules. Expressed in the tapetum and microspore mother cells until the initiation of meiosis. Also detected in stomium and filaments. {ECO:0000269|PubMed:11245574}.
UniprotTISSUE SPECIFICITY: Expressed in lateral root caps, young leaves, stipules, maturing pith cells of the stem, differentiating vascular cells, shoot apical meristems and flowers. {ECO:0000269|PubMed:11245574}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that plays a role in floral organogenesis. Promotes the growth of carpel margins and of pollen tract tissues derived from them. {ECO:0000269|PubMed:10225997, ECO:0000269|Ref.8}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00035PBMTransfer from AT4G36930Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00018993001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by the A class gene AP2 in the first whorl and by ARF3/ETT in gynoecium. {ECO:0000269|PubMed:11245574}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKF9210900.0KF921090.1 Brassica oleracea var. capitata bHLH transcription factor SPT mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013686106.10.0transcription factor SPATULA-like isoform X2
RefseqXP_022575351.10.0transcription factor SPATULA-like isoform X2
SwissprotQ9FUA41e-156SPT_ARATH; Transcription factor SPATULA
TrEMBLA0A078GCN80.0A0A078GCN8_BRANA; BnaC03g61610D protein
STRINGBo3g153630.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM41992754
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G36930.11e-142bHLH family protein
Publications ? help Back to Top
  1. Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH
    Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature.
    Differentiation, 2010. 80(1): p. 1-8
    [PMID:20219281]
  2. Pabón-Mora N,Wong GK,Ambrose BA
    Evolution of fruit development genes in flowering plants.
    Front Plant Sci, 2014. 5: p. 300
    [PMID:25018763]
  3. 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]
  4. Moubayidin L,Ostergaard L
    Dynamic control of auxin distribution imposes a bilateral-to-radial symmetry switch during gynoecium development.
    Curr. Biol., 2014. 24(22): p. 2743-8
    [PMID:25455035]
  5. Pfannebecker KC,Lange M,Rupp O,Becker A
    Seed Plant-Specific Gene Lineages Involved in Carpel Development.
    Mol. Biol. Evol., 2017. 34(4): p. 925-942
    [PMID:28087776]
  6. Zumajo-Cardona C,Ambrose BA,Pabón-Mora N
    Evolution of the SPATULA/ALCATRAZ gene lineage and expression analyses in the basal eudicot, Bocconia frutescens L. (Papaveraceae).
    Evodevo, 2017. 8: p. 5
    [PMID:28331573]
  7. Reyes-Olalde JI, et al.
    The bHLH transcription factor SPATULA enables cytokinin signaling, and both activate auxin biosynthesis and transport genes at the medial domain of the gynoecium.
    PLoS Genet., 2017. 13(4): p. e1006726
    [PMID:28388635]
  8. Wu M, et al.
    SPATULA regulates floral transition and photomorphogenesis in a PHYTOCHROME B-dependent manner in Arabidopsis.
    Biochem. Biophys. Res. Commun., 2018. 503(4): p. 2380-2385
    [PMID:29966653]