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 ORGLA12G0010300.1
Organism
Oryza glaberrima
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: 514aa    MW: 54782.1 Da    PI: 6.3427
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA12G0010300.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS245.32.4e-752885132237
               GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykal.ppsetseknsseelaalklfsevsPilk 92 
                         +lLl+cAe v++++l +a+++L ++ ela+p g+++qR+aayf+eA++arl++s+ +ly+ l +ps++  + + +++aa+++f+ +sP++k
  ORGLA12G0010300.1 288 LTLLLQCAESVNADNLDEAHRALLEIAELATPFGTSTQRVAAYFAEAMSARLVSSCLGLYAPLpSPSPAGARVHGRVAAAFQVFNGISPFVK 379
                        579************************************************************55555555558899999************ PP

               GRAS  93 fshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvak 184
                        fsh+taNqaI ea+e+eervHiiD+di+qGlQWp L++ LasRp+gpp++R+Tg+g+    s e+le+tg+rL++fA++lg+pfef + va+
  ORGLA12G0010300.1 380 FSHFTANQAIQEAFEREERVHIIDLDIMQGLQWPGLFHILASRPGGPPRVRLTGLGA----SMEALEATGKRLSDFADTLGLPFEFCP-VAD 466
                        *********************************************************....***************************.7** PP

               GRAS 185 rledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPk 237
                        +  +l++e+L v ++Ea+aV++    h+l+d ++s ++    +L+l+++l P+
  ORGLA12G0010300.1 467 KAGNLDPEKLGVTRREAVAVHWLR--HSLYDVTGSDSN----TLWLIQRLWPT 513
                        **********************99..999999999998....9****999885 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098543.713261514IPR005202Transcription factor GRAS
PfamPF035148.4E-73288513IPR005202Transcription 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: 514 aa     Download sequence    Send to blast
WAPPPSSSSS PSATHSSYSS SHAITSLLPP LPSDHHLLLY LDHQEQHHLA AAMVRKRPAS  60
DMDLPPPRRH VTGDLSDVTA AAAGAPTLSA SAQLPALPTQ LPAFHHTDMD LAAPVPPAPQ  120
QVAAGEGGPP STAWVDGIIR DIIASSGAAV SVAQLIHNVR EIIRPCNPDL ASILELRLRS  180
LLNSDPAPPP PPPPSHPALL PPDATAPPPP PTSVAALPPP PPAQPDKRRR EPQCQEQEPN  240
QPQSPKPPTA EETAAAAAAA AAAAAAAAKE RKEEQRRKQR DEEGLHLLTL LLQCAESVNA  300
DNLDEAHRAL LEIAELATPF GTSTQRVAAY FAEAMSARLV SSCLGLYAPL PSPSPAGARV  360
HGRVAAAFQV FNGISPFVKF SHFTANQAIQ EAFEREERVH IIDLDIMQGL QWPGLFHILA  420
SRPGGPPRVR LTGLGASMEA LEATGKRLSD FADTLGLPFE FCPVADKAGN LDPEKLGVTR  480
REAVAVHWLR HSLYDVTGSD SNTLWLIQRL WPTF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A1e-1272715123243Protein 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapORGLA12G0010300.1
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.
GenBankAP0149680.0AP014968.1 Oryza sativa Japonica Group DNA, chromosome 12, cultivar: Nipponbare, complete sequence.
GenBankBX0005060.0BX000506.4 Oryza sativa chromosome 12, . BAC OJ1311_G04 of library Monsanto from chromosome 12 of cultivar Nipponbare of ssp. japonica of Oryza sativa (rice), complete 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
TrEMBLI1R3J70.0I1R3J7_ORYGL; Uncharacterized protein
STRINGORGLA12G0010300.10.0(Oryza glaberrima)
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
AT3G54220.11e-115GRAS 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]