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_Os06g03710.1
Common NameLOC4339978, Os06g0127800, OSJNBa0038F22.20, OSNPB_060127800, P0425F02.54
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: 618aa    MW: 65846.8 Da    PI: 6.4339
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os06g03710.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS396.23.5e-1212175941374
              GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdg.dpmqRlaayfteALaarlarsvselykalppsetsekn...sseelaalklfsevsP 89 
                       lv++L++cA+ +s+g++e+a+ +Larl e+asp+g +pm+R+aayfteALa r++r++++++++ pp+e +++     ++ ++al++++ ++P
  LOC_Os06g03710.1 217 LVRALTACADSLSAGNHEAANYYLARLGEMASPAGpTPMHRVAAYFTEALALRVVRMWPHMFDIGPPRELTDDAfggGDDDAMALRILNAITP 309
                       6899*******************************************************************9989999*************** PP

              GRAS  90 ilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlv 182
                       i++f h+t N+ +l+++eg+ervH+iDfdi+qGlQWp Llq+La+R+ +p+++RiTgvg+    s++el+etg rLa++A++lg+ fef++ v
  LOC_Os06g03710.1 310 IPRFLHFTLNERLLREFEGHERVHVIDFDIKQGLQWPGLLQSLAARAVPPAHVRITGVGE----SRQELQETGARLARVAAALGLAFEFHA-V 397
                       ************************************************************....9**************************.7 PP

              GRAS 183 akrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadh.nsesFlerflealeyysalfdsl.ea 273
                       ++rled++l++L+vk+gE++aVn+vl++hrll+++++l++    +L l +s+ ++++ + e+e    ns+++ +rf++al+yy+a fd++ +a
  LOC_Os06g03710.1 398 VDRLEDVRLWMLHVKRGECVAVNCVLAMHRLLRDDAALTD----FLGLARSTGATILLLGEHEGGGlNSGRWEARFARALRYYAAAFDAVdAA 486
                       ************************************9999....*******************8777***********************999 PP

              GRAS 274 klpreseerikvErellgreivnvvacegaerrerhetlekWrerlee.aGFkpvplsekaakqaklllrkvksdgyrveee.......sgsl 358
                       +lp++s +r+k E++ ++rei+n+va eg er+erhe+++ Wr+r+e+  GFk++ ++e++a+q +++ r+++ d y+v+ +        ++l
  LOC_Os06g03710.1 487 GLPEASPARAKAEEM-FAREIRNAVAFEGPERFERHESFAGWRRRMEDgGGFKNAGIGEREAMQGRMIARMFGPDKYTVQAHggggsggGEAL 578
                       9**************.*******************************9679**********************888****8888888867778 PP

              GRAS 359 vlgWkdrpLvsvSaWr 374
                       +l W d+pL++v+aW+
  LOC_Os06g03710.1 579 TLRWLDQPLYTVTAWT 594
                       8**************6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098554.179191567IPR005202Transcription factor GRAS
PfamPF035141.2E-118217594IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009030anatomycarpel
PO:0007130developmental stagesporophyte reproductive stage
PO:0007606developmental stagegynoecium development stage
Sequence ? help Back to Top
Protein Sequence    Length: 618 aa     Download sequence    Send to blast
MLAGCSFSSS RHQMSTAQRF DILPCGFSKR GSRGDGAAPR VAGDARSGAT TCSFRTHPAP  60
PVTQSVSWGA KPEPGGNGNG AHRAVKRAHD EDAVEEYGPI VRAKRTRMGG DGDEVWFHQS  120
IAGTMQATAA GEGEEAEEEK VFLVPSAAAF PHGMAAAGPS LAAAKKEEYS KSPSDSSSSS  180
GTDGGSSAMM PPPQPPEFDA RNGVPAPGQA EREALELVRA LTACADSLSA GNHEAANYYL  240
ARLGEMASPA GPTPMHRVAA YFTEALALRV VRMWPHMFDI GPPRELTDDA FGGGDDDAMA  300
LRILNAITPI PRFLHFTLNE RLLREFEGHE RVHVIDFDIK QGLQWPGLLQ SLAARAVPPA  360
HVRITGVGES RQELQETGAR LARVAAALGL AFEFHAVVDR LEDVRLWMLH VKRGECVAVN  420
CVLAMHRLLR DDAALTDFLG LARSTGATIL LLGEHEGGGL NSGRWEARFA RALRYYAAAF  480
DAVDAAGLPE ASPARAKAEE MFAREIRNAV AFEGPERFER HESFAGWRRR MEDGGGFKNA  540
GIGEREAMQG RMIARMFGPD KYTVQAHGGG GSGGGEALTL RWLDQPLYTV TAWTPAGDGA  600
GGSTVSASTT ASHSQQS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A4e-5922459526380Protein SCARECROW
5b3h_A4e-5922459525379Protein SCARECROW
5b3h_D4e-5922459525379Protein SCARECROW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.891100.0callus| flower| panicle
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1154661350.0
Expression AtlasQ9LWU9-
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in the shoot apical meristem (SAM) and elongating cells of young seedlings. Expressed in leaf joints, culms, internodes, stems, young panicles, primary roots and lateral roots. {ECO:0000269|PubMed:19220793}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that acts as positivie regulator of brassinosteroid (BR) signaling (PubMed:19220793, PubMed:22685166). Functions downstream of BRI1 and GSK2 to modulate BR responses. Acts as a direct target of GSK2 kinase to mediate BR responses (PubMed:22685166). Involved in feedback inhibition of BR biosynthetic genes. Repressed by BZR1 (PubMed:19220793). {ECO:0000269|PubMed:19220793, ECO:0000269|PubMed:22685166}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os06g03710.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by 24-epibrassinolide. {ECO:0000269|PubMed:19220793}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs06g03710
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0011680.0AP001168.1 Oryza sativa Japonica Group genomic DNA, chromosome 6, clone:P0425F02.
GenBankAP0028380.0AP002838.2 Oryza sativa Japonica Group genomic DNA, chromosome 6, BAC clone:OSJNBa0038F22.
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_025881992.10.0protein DWARF AND LOW-TILLERING-like
SwissprotQ9LWU90.0DLT_ORYSJ; Protein DWARF AND LOW-TILLERING
TrEMBLA0A0E0PSX00.0A0A0E0PSX0_ORYRU; Uncharacterized protein
STRINGORUFI06G01590.10.0(Oryza rufipogon)
STRINGOS06T0127800-010.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP64043455
Representative plantOGRP55071521
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G63100.11e-115GRAS family protein
Publications ? help Back to Top
  1. Tong H,Chu C
    Roles of DLT in fine modulation on brassinosteroid response in rice.
    Plant Signal Behav, 2009. 4(5): p. 438-9
    [PMID:19816111]
  2. Li W, et al.
    Identification and characterization of dwarf 62, a loss-of-function mutation in DLT/OsGRAS-32 affecting gibberellin metabolism in rice.
    Planta, 2010. 232(6): p. 1383-96
    [PMID:20830595]
  3. Tong H, et al.
    DWARF AND LOW-TILLERING acts as a direct downstream target of a GSK3/SHAGGY-like kinase to mediate brassinosteroid responses in rice.
    Plant Cell, 2012. 24(6): p. 2562-77
    [PMID:22685166]
  4. Zhang C,Bai MY,Chong K
    Brassinosteroid-mediated regulation of agronomic traits in rice.
    Plant Cell Rep., 2014. 33(5): p. 683-96
    [PMID:24667992]
  5. Yang C,Shen W,He Y,Tian Z,Li J
    OVATE Family Protein 8 Positively Mediates Brassinosteroid Signaling through Interacting with the GSK3-like Kinase in Rice.
    PLoS Genet., 2016. 12(6): p. e1006118
    [PMID:27332964]