PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID ORUFI12G01460.1
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 GRAS
Protein Properties Length: 660aa    MW: 70394.7 Da    PI: 6.3308
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORUFI12G01460.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS410.31.8e-1252936532374
             GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykal.ppsetseknsseelaalklfsevsPilkfs 94 
                       +lLl+cAe v++++l +a+++L ++ ela+p g+++qR+aayf+eA++arl++s+ +ly+ l +ps++  + + +++aa+++f+ +sP++kfs
  ORUFI12G01460.1 293 LTLLLQCAESVNADNLDEAHRALLEIAELATPFGTSTQRVAAYFAEAMSARLVSSCLGLYAPLpSPSPAGARVHGRVAAAFQVFNGISPFVKFS 386
                      579************************************************************55555555558899999************** PP

             GRAS  95 hltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrled 188
                      h+taNqaI ea+e+eervHiiD+di+qGlQWp L++ LasRp+gpp++R+Tg+g+    s e+le+tg+rL++fA++lg+pfef + va++  +
  ORUFI12G01460.1 387 HFTANQAIQEAFEREERVHIIDLDIMQGLQWPGLFHILASRPGGPPRVRLTGLGA----SMEALEATGKRLSDFADTLGLPFEFCP-VADKAGN 475
                      *******************************************************....***************************.7****** PP

             GRAS 189 leleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseer 282
                      l++e+L v ++Ea+aV++    h+l+d ++s ++    +L+l+++l Pkvv++veq+++h s+sFl+rf+ea++yysalfdsl+a+++++s er
  ORUFI12G01460.1 476 LDPEKLGVTRREAVAVHWLR--HSLYDVTGSDSN----TLWLIQRLAPKVVTMVEQDLSH-SGSFLARFVEAIHYYSALFDSLDASYSEDSPER 562
                      ******************99..999999999999....**********************.899****************************** PP

             GRAS 283 ikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374
                      ++vE++ll+rei+nv+a  g +r+ + + +++Wre+l ++GF+  +l  +aa+qa lll +++sdgy++ ee+g+l lgWkd  L+++SaWr
  ORUFI12G01460.1 563 HVVEQQLLSREIRNVLAVGGPARTGDVK-FGSWREKLAQSGFRVSSLAGSAAAQAALLLGMFPSDGYTLIEENGALKLGWKDLCLLTASAWR 653
                      **********************999987.**************************************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098562.042266633IPR005202Transcription factor GRAS
PfamPF035146.1E-123293653IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0008356Biological Processasymmetric cell division
GO:0009630Biological Processgravitropism
GO:0009956Biological Processradial pattern formation
GO:0048366Biological Processleaf development
GO:0051457Biological Processmaintenance of protein location in nucleus
GO:0090610Biological Processbundle sheath cell fate specification
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 660 aa     Download sequence    Send to blast
MGSSSLLLFP SSSSSATHSS YSPSSSSHAI TSLLPPLPSD HHLLLYLDHQ EQHHLAAAMV  60
RKRPASDMDL PPPRRHVTGD LSDVTAAAAG APTLSASAQL PALPTQLPAF HHTDMDLAAP  120
APPAPQQVAA GEGGPPSTAW VDGIIRDIIA SSGAAVSVAQ LIHNVREIIR PCNPDLASIL  180
ELRLRSLLNS DPAPPPPPPS HPALLPPDAT APPPPPTSVA ALPPPPPAQP DKRRREPQCQ  240
EQEPNQPQSP KPPTAEETAA AAAAAAAAAA AAAKERKEEQ RRKQRDEEGL HLLTLLLQCA  300
ESVNADNLDE AHRALLEIAE LATPFGTSTQ RVAAYFAEAM SARLVSSCLG LYAPLPSPSP  360
AGARVHGRVA AAFQVFNGIS PFVKFSHFTA NQAIQEAFER EERVHIIDLD IMQGLQWPGL  420
FHILASRPGG PPRVRLTGLG ASMEALEATG KRLSDFADTL GLPFEFCPVA DKAGNLDPEK  480
LGVTRREAVA VHWLRHSLYD VTGSDSNTLW LIQRLAPKVV TMVEQDLSHS GSFLARFVEA  540
IHYYSALFDS LDASYSEDSP ERHVVEQQLL SREIRNVLAV GGPARTGDVK FGSWREKLAQ  600
SGFRVSSLAG SAAAQAALLL GMFPSDGYTL IEENGALKLG WKDLCLLTAS AWRPIQASGR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A0.02766543380Protein SCARECROW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in asmmetric cell division in the cortex/endodermis progenitor cell and in the process of stomata and ligule formation in leaves. {ECO:0000250}.
UniProtProbable transcription factor involved in asmmetric cell division in the cortex/endodermis progenitor cell and in the process of stomata and ligule formation in leaves. {ECO:0000269|PubMed:12974810}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2431310.0AK243131.1 Oryza sativa Japonica Group cDNA, clone: J100030A12, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015620600.10.0protein SCARECROW 2
SwissprotA2ZHL00.0SCR2_ORYSI; Protein SCARECROW 2
SwissprotQ2QYF30.0SCR2_ORYSJ; Protein SCARECROW 2
TrEMBLA0A0E0RD240.0A0A0E0RD24_ORYRU; Uncharacterized protein
STRINGORUFI12G01460.10.0(Oryza rufipogon)
STRINGOS12T0122000-010.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP137138122
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G54220.10.0GRAS family protein
Publications ? help Back to Top
  1. Kamiya N, et al.
    Rice globular embryo 4 (gle4) mutant is defective in radial pattern formation during embryogenesis.
    Plant Cell Physiol., 2003. 44(9): p. 875-83
    [PMID:14519768]
  2. Lim J, et al.
    Conservation and diversification of SCARECROW in maize.
    Plant Mol. Biol., 2005. 59(4): p. 619-30
    [PMID:16244911]
  3. Kaur P, et al.
    Genes controlling plant growth habit in Leymus (Triticeae): maize barren stalk1 (ba1), rice lax panicle, and wheat tiller inhibition (tin3) genes as possible candidates.
    Funct. Integr. Genomics, 2008. 8(4): p. 375-86
    [PMID:18543009]
  4. Sazuka T, et al.
    A rice tryptophan deficient dwarf mutant, tdd1, contains a reduced level of indole acetic acid and develops abnormal flowers and organless embryos.
    Plant J., 2009. 60(2): p. 227-41
    [PMID:19682283]
  5. Fan T, et al.
    Rice osa-miR171c Mediates Phase Change from Vegetative to Reproductive Development and Shoot Apical Meristem Maintenance by Repressing Four OsHAM Transcription Factors.
    PLoS ONE, 2015. 10(5): p. e0125833
    [PMID:26023934]
  6. Yi J, et al.
    OsMPK6 plays a critical role in cell differentiation during early embryogenesis in Oryza sativa.
    J. Exp. Bot., 2016. 67(8): p. 2425-37
    [PMID:26912801]
  7. Li S, et al.
    Crystal Structure of the GRAS Domain of SCARECROW-LIKE7 in Oryza sativa.
    Plant Cell, 2016. 28(5): p. 1025-34
    [PMID:27081181]