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 353119
Common NameARALYDRAFT_353119
Organism
Arabidopsis lyrata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family bHLH
Protein Properties Length: 355aa    MW: 38246.2 Da    PI: 6.7607
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
353119genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH50.92.8e-16180226455
             HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
     HLH   4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
              hn  E+rRR+riN+++  L++l+P++      K +Ka++L +A+eY+k+Lq
  353119 180 VHNLSEKRRRSRINEKMKALQSLIPNS-----NKTDKASMLDEAIEYLKQLQ 226
             6*************************7.....5******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF474594.97E-20174236IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088818.063176225IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.104.3E-19177236IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000832.94E-17179230No hitNo description
PfamPF000109.7E-14180226IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003534.0E-18182231IPR011598Myc-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: 355 aa     Download sequence    Send to blast
MGDKKLISSS SSSVYDTTRI NHHHHPPSSS DEISQFLRHI FDRSSPLPSY YSPATTTTPT  60
SMIGVQVHGD PHADNSRSLV SHHPPSDSVL MSKRVGDFSE VLIGGGACFG FSGGGNNNNA  120
QGNSSGTRVS SSSVGASGNE TDEYDCESEE GGEAVVDEAP SSKSGPSSRS SSKRCRAAEV  180
HNLSEKRRRS RINEKMKALQ SLIPNSNKTD KASMLDEAIE YLKQLQLQVQ MLTMRNGINL  240
HHPLCLPGTT LHPLQLSQIR PPEATNDPLL NHTNQFASTS NAPEMINTVA SSYALEPSIR  300
SHFGPFPPLL NSPAEMSREG GLTHQRLNIG HSNANLTGEQ ALFDGQPDLK DRIT*
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
PlantRegMap353119
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
GenBankAF3195400.0AF319540.1 Arabidopsis thaliana SPATULA (SPT) mRNA, complete cds.
GenBankAK2292670.0AK229267.1 Arabidopsis thaliana mRNA for putative bHLH transcription factor (AtbHLH024) / SPATULA (SPT), complete cds, clone: RAFL16-54-P05.
GenBankBT0264620.0BT026462.1 Arabidopsis thaliana At4g36930 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002866965.20.0transcription factor SPATULA
SwissprotQ9FUA40.0SPT_ARATH; Transcription factor SPATULA
TrEMBLD7MAZ50.0D7MAZ5_ARALL; Uncharacterized protein
STRINGfgenesh1_pg.C_scaffold_70002920.0(Arabidopsis lyrata)
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-177bHLH 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. 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]
  4. 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]
  5. 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]
  6. 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]
  7. 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]