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 ORUFI05G29450.1
Organism
Oryza rufipogon
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family bHLH
Protein Properties Length: 387aa    MW: 41088.2 Da    PI: 4.9348
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORUFI05G29450.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH40.93.6e-13151202155
                      CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
              HLH   1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                      +r++h ++Er+RR+++N+ +  Lr+l+P +   + ++ + a+i   A+e+I++L+
  ORUFI05G29450.1 151 QRMTHIAVERNRRRQMNEYLRVLRSLMPGS---YVQRGDQASIIGGAIEFIRELE 202
                      79****************************...9******************996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.280.101.1E-13149205IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000833.79E-14149206No hitNo description
PROSITE profilePS5088815.897150201IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474595.89E-17150219IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.5E-10151202IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.0E-9156207IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5167110.103313387IPR002912ACT domain
CDDcd048730.0014313371No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010377Biological Processguard cell fate commitment
GO:0045597Biological Processpositive regulation of cell differentiation
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0051782Biological Processnegative regulation of cell division
GO:0005634Cellular Componentnucleus
GO:0016597Molecular Functionamino acid binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 387 aa     Download sequence    Send to blast
MVDYMLGQPP PTTPGPQSQV SFDKLTFSDV LQFADFGPKL ALNQPAASDN GGGGGDDGDD  60
DDDSYFLRFQ SLPSLPAVPP PRGGAGAAHQ VVDEQEGSKQ TVDAGGVSES TTLVQQADGG  120
GGRAEKAGEQ GKSGRRKRPR TVKTSEEVES QRMTHIAVER NRRRQMNEYL RVLRSLMPGS  180
YVQRGDQASI IGGAIEFIRE LEQLIQCLES QKRRRLYGGD APAPPARPVA DGAVLPAPMQ  240
QPPPATPPFF PPSIPFPASS GAGDGTGAGV AKVALDLDAS GGGEVGGGVR EEMAENKSCV  300
ADIEVRVVGV DAMIKILSRR RPGQLIKTVA ALEEMHMSIL HTNITTIDQT VLYSFNVKIA  360
GDARFSAEDI AGAVHQILSF IDVNYTL
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1151162RMTHIAVERNRR
2211215KRRRL
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator (PubMed:17088607, PubMed:17183265, PubMed:17183267). Together with MYB88 and MYB124, ensures that stomata contain just two guard cells (GCs) by enforcing a single symmetric precursor cell division before stomatal maturity (PubMed:24571519). Together with SPCH and MUTE, regulates the stomata formation. Required to promote differentiation and morphogenesis of stomatal guard cells and to halt proliferative divisions in their immediate precursors. Mediates the formation of stomata (PubMed:17088607, PubMed:17183265, PubMed:17183267). Prevents histone H3K27me3 marks and derepresses stem cell gene expression (PubMed:24654956). {ECO:0000269|PubMed:17088607, ECO:0000269|PubMed:17183265, ECO:0000269|PubMed:17183267, ECO:0000269|PubMed:24571519, ECO:0000269|PubMed:24654956}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Inhibited by low relative humidity (LRH) via epigenetic CG methylation, thus leading to a reduced stomatal index. {ECO:0000269|PubMed:22442411}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1376080.0AC137608.2 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OSJNBa0009C07, complete sequence.
GenBankAP0149610.0AP014961.1 Oryza sativa Japonica Group DNA, chromosome 5, cultivar: Nipponbare, complete sequence.
GenBankCP0126130.0CP012613.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015638786.10.0transcription factor FAMA
SwissprotQ56YJ81e-110FAMA_ARATH; Transcription factor FAMA
TrEMBLA2Y8070.0A2Y807_ORYSI; Uncharacterized protein
STRINGORUFI05G29450.10.0(Oryza rufipogon)
STRINGONIVA05G29540.10.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP95023340
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G24140.14e-56bHLH 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. Matos JL, et al.
    Irreversible fate commitment in the Arabidopsis stomatal lineage requires a FAMA and RETINOBLASTOMA-RELATED module.
    Elife, 2015.
    [PMID:25303364]
  3. Chen L, et al.
    NRPB3, the third largest subunit of RNA polymerase II, is essential for stomatal patterning and differentiation in Arabidopsis.
    Development, 2016. 143(9): p. 1600-11
    [PMID:26989174]
  4. Lee JH,Jung JH,Park CM
    Light Inhibits COP1-Mediated Degradation of ICE Transcription Factors to Induce Stomatal Development in Arabidopsis.
    Plant Cell, 2017. 29(11): p. 2817-2830
    [PMID:29070509]
  5. Han X, et al.
    Jasmonate Negatively Regulates Stomatal Development in Arabidopsis Cotyledons.
    Plant Physiol., 2018. 176(4): p. 2871-2885
    [PMID:29496884]
  6. Li X,Yang R,Chen H
    The Arabidopsis thaliana Mediator subunit MED8 regulates plant immunity to Botrytis Cinerea through interacting with the basic helix-loop-helix (bHLH) transcription factor FAMA.
    PLoS ONE, 2018. 13(3): p. e0193458
    [PMID:29513733]