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 LOC_Os06g10900.1
Organism
Oryza sativa subsp. japonica
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; Oryza sativa
Family GRAS
Protein Properties Length: 224aa    MW: 25058.9 Da    PI: 8.6809
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os06g10900.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS150.51.5e-4629167229374
              GRAS 229 klvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerlee 321
                       + +++ls kv+vv+eqe++hn++ + erf+eal+yy+alfd+le++ +r s er+ vEr llg+ei+n+vac g errerhe       rle 
  LOC_Os06g10900.1  29 ESLRGLSLKVMVVTEQEVSHNAAGLTERFVEALNYYAALFDCLEVGGARGSVERTRVERWLLGEEIKNIVACDGGERRERHE-------RLEG 114
                       57899****************************************************************************9.......999* PP

              GRAS 322 aGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374
                       aGF+ vpls++a  qa+++ +  + dg++v ee+g ++l+W+dr+L+svSaWr
  LOC_Os06g10900.1 115 AGFGRVPLSYYALLQARRVAQGLGCDGFKVREEKGNFFLCWQDRALFSVSAWR 167
                       ****************************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098516.2191147IPR005202Transcription factor GRAS
PfamPF035145.2E-4429167IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
Sequence ? help Back to Top
Protein Sequence    Length: 224 aa     Download sequence    Send to blast
MALTKEAERL DVPFQFNPVV SRLDALDVES LRGLSLKVMV VTEQEVSHNA AGLTERFVEA  60
LNYYAALFDC LEVGGARGSV ERTRVERWLL GEEIKNIVAC DGGERRERHE RLEGAGFGRV  120
PLSYYALLQA RRVAQGLGCD GFKVREEKGN FFLCWQDRAL FSVSAWRGRR FAALLPLPPS  180
TPLPCSRVIA TLLSSPPPPC SPLHPYCPER RERMKGEKKG KRE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A1e-203169179381Protein SCARECROW
5b3h_A1e-203169178380Protein SCARECROW
5b3h_D1e-203169178380Protein SCARECROW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.589821e-106callus| flower| leaf| root| stem
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in seedlings, root epidermis, leaves, flowers and siliques. {ECO:0000269|PubMed:10341448, ECO:0000269|PubMed:18500650}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in plant development. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os06g10900.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs06g10900
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0034580.0AP003458.4 Oryza sativa Japonica Group genomic DNA, chromosome 6, PAC clone:P0701E03.
GenBankAP0046870.0AP004687.2 Oryza sativa Japonica Group genomic DNA, chromosome 6, PAC clone:P0021C04.
GenBankAP0149620.0AP014962.1 Oryza sativa Japonica Group DNA, chromosome 6, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020165765.12e-85scarecrow-like protein 3
SwissprotQ9LPR81e-53SCL3_ARATH; Scarecrow-like protein 3
TrEMBLA0A0N7KLR41e-136A0A0N7KLR4_ORYSJ; Os06g0211500 protein (Fragment)
STRINGOS06T0211500-001e-137(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP60438176
Representative plantOGRP25641433
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G50420.12e-45scarecrow-like 3
Publications ? help Back to Top
  1. Gong X, et al.
    SEUSS Integrates Gibberellin Signaling with Transcriptional Inputs from the SHR-SCR-SCL3 Module to Regulate Middle Cortex Formation in the Arabidopsis Root.
    Plant Physiol., 2016. 170(3): p. 1675-83
    [PMID:26818732]
  2. Lee SA, et al.
    Interplay between ABA and GA Modulates the Timing of Asymmetric Cell Divisions in the Arabidopsis Root Ground Tissue.
    Mol Plant, 2016. 9(6): p. 870-84
    [PMID:26970019]
  3. Choi JW,Lim J
    Control of Asymmetric Cell Divisions during Root Ground Tissue Maturation.
    Mol. Cells, 2016. 39(7): p. 524-9
    [PMID:27306644]