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_Os03g29480.1
Common NameOs03g0408600, OSJNBa0030J19.7, OSNPB_030408600
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: 524aa    MW: 54077.6 Da    PI: 6.384
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os03g29480.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS186.71.5e-571345202374
              GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlar.svselykalppsetseknsseelaal.kl.......fs 85 
                       ++lL  cA av++g+l+++q+l   l el s +gd+++Rlaa+ ++ALa+ l    ++  ++a+++ + se+ ++  +aa  +l       f+
  LOC_Os03g29480.1 134 EQLLNPCAVAVEAGNLSRVQHLFYVLGELESFSGDANHRLAAHGLRALARWLPAaVGPAAAAAVRVPPCSERPTTAFAAAEpRLfraslirFH 226
                       689*************************************************986677777777555555444333333332123335589** PP

              GRAS  86 evsPilkfshltaNqaIleavege......ervHiiDfdisqGlQWpaLlqaLasRp..egppslRiTgvgspesg........skeeleetg 162
                       evsP++ + + +aN aI +a          + +H++D+++s+G+QWp+Ll++L+ +p  + pps+R+T+vg+ ++          +       
  LOC_Os03g29480.1 227 EVSPWFALPNALANAAIAQASTCGaagatpRPLHVVDLGVSHGVQWPTLLESLTRQPggRAPPSVRLTVVGPGATAtspvapfsASPPGYDFS 319
                       *******************96533345567889************************656699********9877788999998888899999 PP

              GRAS 163 erLakfAeelgvpfefnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqe.....adhns 250
                         L ++A++++++++++   a +l+d        + gEal+V+l+++l +        ++er+evL+  ++l+P++vv++e +     +  ++
  LOC_Os03g29480.1 320 PHLLRYAKSINLDLRISR--AATLDDA----VPGDDGEALVVCLQFRLGHAA------AEERREVLRKARGLNPELVVLSELDsgvgvVGGDG 400
                       9****************8..5667766....66789**********999997......445899******************94443333356 PP

              GRAS 251 esFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrk 343
                       +s + +f+  le  + +++s++a +    + + + Er+ll+ e+  ++a++  +  +  e  e Wrer+ +aGF+++p++ +a+++a++llrk
  LOC_Os03g29480.1 401 GSAAGEFAARLELLWRFLESTSAAF----KGKDVEERRLLEAEAGAILAAADVA--AAGEGREGWRERMAAAGFEEAPFGAEAVESARSLLRK 487
                       699******************9997....6777788888888899999998887..788999******************************* PP

              GRAS 344 vk.sdgyrveeesgslv.lgWkdrpLvsvSaWr 374
                       ++ +++++  +  +++v l Wk++p+ ++S Wr
  LOC_Os03g29480.1 488 YDsGWEMSAPSPAAAAVaLRWKGQPVSFCSLWR 520
                       **6555666666666667**************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098535.46107498IPR005202Transcription factor GRAS
PfamPF035145.3E-55134520IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0042446Biological Processhormone biosynthetic process
GO:2000032Biological Processregulation of secondary shoot formation
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 524 aa     Download sequence    Send to blast
MSYHEEERHG GNGLDWFEES MSSLLAADVD LAGGGGDAGG GGYAWWWAAS PAAQQDDIGS  60
VVAQTLSPPS TAAPAAASPS IASPAASSPS DVPSSSSKKR KSPAHRAPGH TGGKKGGGGK  120
GGGGGSDRDM RWAEQLLNPC AVAVEAGNLS RVQHLFYVLG ELESFSGDAN HRLAAHGLRA  180
LARWLPAAVG PAAAAAVRVP PCSERPTTAF AAAEPRLFRA SLIRFHEVSP WFALPNALAN  240
AAIAQASTCG AAGATPRPLH VVDLGVSHGV QWPTLLESLT RQPGGRAPPS VRLTVVGPGA  300
TATSPVAPFS ASPPGYDFSP HLLRYAKSIN LDLRISRAAT LDDAVPGDDG EALVVCLQFR  360
LGHAAAEERR EVLRKARGLN PELVVLSELD SGVGVVGGDG GSAAGEFAAR LELLWRFLES  420
TSAAFKGKDV EERRLLEAEA GAILAAADVA AAGEGREGWR ERMAAAGFEE APFGAEAVES  480
ARSLLRKYDS GWEMSAPSPA AAAVALRWKG QPVSFCSLWR PAA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_B4e-2513152285475Protein SHORT-ROOT
5b3h_B2e-2513152231421Protein SHORT-ROOT
5b3h_E2e-2513152231421Protein SHORT-ROOT
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1110125TGGKKGGGGKGGGGGS
2117124GGKGGGGG
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasQ84MQ9
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os03g29480.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs03g29480
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1355590.0AC135559.4 Oryza sativa chromosome 3 BAC OSJNBa0030J19 genomic sequence, complete sequence.
GenBankAP0149590.0AP014959.1 Oryza sativa Japonica Group DNA, chromosome 3, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015629536.10.0nodulation-signaling pathway 1 protein
TrEMBLA0A0E0NWE10.0A0A0E0NWE1_ORYRU; Uncharacterized protein
TrEMBLA2XHV20.0A2XHV2_ORYSI; Uncharacterized protein
TrEMBLQ84MQ90.0Q84MQ9_ORYSJ; GRAS family transcription factor containing protein, expressed
STRINGORUFI03G21700.10.0(Oryza rufipogon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP61352854
Representative plantOGRP40821525
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G13840.15e-60GRAS family protein