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 LOC_Os05g40710.1
Common NameLOC107275603, OJ1004_E02.2, OSJNBb0099O15.13
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: 494aa    MW: 51644.4 Da    PI: 6.138
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os05g40710.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS276.58.2e-851174842374
              GRAS   2 velLlecAeavssgdlelaqalLarlselaspdg.dpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkf 93 
                       + lL+ecA a+s g+l+ a+ +L +ls++asp++ +  +Rl+ayf++A+aarl++s+ ++++ ++p ++         aa++++++v P+ ++
  LOC_Os05g40710.1 117 IALLMECAAAMSVGNLAGANGALLELSQMASPYAaSCGERLVAYFARAMAARLVGSWVGVVAPMAPPPSC----GAINAAFRALYNVAPFARL 205
                       689******************************96778***********************999888885....6777899************ PP

              GRAS  94 shltaNqaIleavegeervHiiDfdisqG..lQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvak 184
                       ++l++NqaIlea++g++ vHi+D+d+  G  lQW++Ll aLa+Rp+gpp +R+Tg+g     s+  l+ tg++La +A++l + fef +++ +
  LOC_Os05g40710.1 206 AYLACNQAILEAFHGKRLVHIVDLDVVPGgaLQWLSLLPALAARPGGPPVIRVTGFGM----SASVLHDTGNQLAGLARKLCMFFEFYAVAKR 294
                       **************************988447**************************....9**************************8777 PP

              GRAS 185 rledleleeLrvkp.gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnse....sFlerflealeyysalfdsle 272
                         ++  + ++  ++ gEa+aV++    h ++d  ++        ++lv+ l+P  v++veqe  h+++    +Fl+rf++al++ysa+fd++ 
  LOC_Os05g40710.1 295 PGDADAVADMPGRRpGEAVAVHWLR--HAMYDAAGDDGA----SMRLVRWLEPAAVTLVEQERAHGGGgghgRFLDRFVSALHHYSAVFDAMG 381
                       777778888855555********98..777755555555....99*****************99955445669*******************9 PP

              GRAS 273 aklpres.eerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrveee.sgslvlgW 362
                       a+ p  +   r+  E+ +lgrei nv+a  g +r   +e  ++Wre l + GF  +  +      a+l+ + ++ + gy+v  + +g++ lgW
  LOC_Os05g40710.1 382 ASRPDGEdASRHLAEHGVLGREIANVLAVGGPARSSGREGPGSWREVLARHGFAHAGGGGGG--RAQLVAAACPgGLGYTVAGDhDGTVRLGW 472
                       9988877689999****************************************998887765..5667888999899*****66166666*** PP

              GRAS 363 kdrpLvsvSaWr 374
                       k+ pL++vSaW+
  LOC_Os05g40710.1 473 KGTPLYAVSAWT 484
                       ***********6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098545.04890464IPR005202Transcription factor GRAS
PfamPF035142.8E-82117484IPR005202Transcription 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
Sequence ? help Back to Top
Protein Sequence    Length: 494 aa     Download sequence    Send to blast
MQDSLGLMQF LDHHQYLYSS SSSNLPLQQP LLSHHHRFLE ANEGCAGEDD SPEFVEPPAA  60
AAAAGTFEQR PELGACKEVY SEEGGAAEER TGVAMAGADV EQVAVEDEEE AHGVRMIALL  120
MECAAAMSVG NLAGANGALL ELSQMASPYA ASCGERLVAY FARAMAARLV GSWVGVVAPM  180
APPPSCGAIN AAFRALYNVA PFARLAYLAC NQAILEAFHG KRLVHIVDLD VVPGGALQWL  240
SLLPALAARP GGPPVIRVTG FGMSASVLHD TGNQLAGLAR KLCMFFEFYA VAKRPGDADA  300
VADMPGRRPG EAVAVHWLRH AMYDAAGDDG ASMRLVRWLE PAAVTLVEQE RAHGGGGGHG  360
RFLDRFVSAL HHYSAVFDAM GASRPDGEDA SRHLAEHGVL GREIANVLAV GGPARSSGRE  420
GPGSWREVLA RHGFAHAGGG GGGRAQLVAA ACPGGLGYTV AGDHDGTVRL GWKGTPLYAV  480
SAWTWCSPPH ARA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A1e-89974841379Protein SCARECROW
5b3h_A1e-891014844378Protein SCARECROW
5b3h_D1e-891014844378Protein SCARECROW
Search in ModeBase
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasQ75J73
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os05g40710.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs05g40710
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0939520.0AC093952.2 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OJ1004_E02, complete sequence.
GenBankAC1182890.0AC118289.2 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OSJNBb0099O15, complete sequence.
GenBankAP0149610.0AP014961.1 Oryza sativa Japonica Group DNA, chromosome 5, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015638651.10.0protein SCARECROW
TrEMBLQ75J730.0Q75J73_ORYSJ; Uncharacterized protein
STRINGOS05T0485400-000.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP138132528
Representative plantOGRP1426844
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G54220.11e-64GRAS family protein