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_Os04g46860.1
Common NameLOC4336617, Os04g0555000, OSJNBa0010H02.25, OSJNBb0012E24.1, OSNPB_040555000
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: 712aa    MW: 74007.9 Da    PI: 5.8487
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os04g46860.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS265.32e-813547103374
              GRAS   3 elLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfsh 95 
                       + L ++A+a + g+   a+++Larl+++  p g+p+ R a+y++ AL   la+      +  +++ ts+ +++ +l+a+k fs++sP+l+f++
  LOC_Os04g46860.1 354 DELAAAAKATEVGNSIGAREILARLNQQLPPIGKPFLRSASYLKDALLLALAD-----GHHAATRLTSPLDVALKLTAYKSFSDLSPVLQFAN 441
                       7899*************************************************.....6666777888888********************** PP

              GRAS  96 ltaNqaIleavege..ervHiiDfdisqGlQWpaLlqaLasRp....egppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlv 182
                       +t  qa+l+++++   +++ +iDfd++ G+QW+++lq+La R      + p+l++T+++s++s++  el+ t+++L++fA+ lg+pfefn++ 
  LOC_Os04g46860.1 442 FTVTQALLDEIASTtaSCIRVIDFDLGVGGQWASFLQELAHRCgsggVSLPMLKLTAFVSAASHHPLELHLTQDNLSQFAADLGIPFEFNAI- 533
                       *********999887799************************96544459*****************************************9. PP

              GRAS 183 akrledleleeLrvkp.gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleak 274
                         +l+++++ eL   + +E++aV+l +              + +++L+lvk+l Pk+vv ++  +d+++ +F ++fl++l+ +  l++sl+a 
  LOC_Os04g46860.1 534 --NLDAFDPMELIAPTaDEVVAVSLPVGCSART--------PLPAMLQLVKQLAPKIVVAIDYGSDRSDLPFSQHFLNCLQSCLCLLESLDAA 616
                       ..999999999966557**********877776........5677*********************************************999 PP

              GRAS 275 lpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpL 367
                        ++++++ +k+Er+l++++++++v  + ++      ++  Wr  l++aGF p pls+ a++qa++ll++v+++g++ve++ + l l+W++ +L
  LOC_Os04g46860.1 617 -GTDADAVSKIERFLIQPRVEDAVLGRRRA-----DKAIAWRTVLTSAGFAPQPLSNLAEAQADCLLKRVQVRGFHVEKRGAGLALYWQRGEL 703
                       .8999*******************977665.....88899***************************************************** PP

              GRAS 368 vsvSaWr 374
                       vsvSaWr
  LOC_Os04g46860.1 704 VSVSAWR 710
                       ******8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098542.957326690IPR005202Transcription factor GRAS
PfamPF035146.9E-79354710IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0030154Biological Processcell differentiation
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:0020039anatomyleaf lamina
Sequence ? help Back to Top
Protein Sequence    Length: 712 aa     Download sequence    Send to blast
MRAAPFSADG NGAAELAGSI AALLWPEDKG GGGGGGGGSL LVEPRSVLDC RGSPSPPNST  60
STLSSSHGSG AADSISTGVA AVSESSAAAA EATRWAAPGE HGGGGGGELP PIPGALDVGF  120
VAEESWDAML GDAAAAAGQE QTFLNWIMAA PGDMEPQAPG LSQQQLLANA AGFGFPLQHH  180
PGGVSSPAAL ASDLSSSGGR SLTSSSGSNS KATSAFGLLS PEAALQPPPA TTAPFHNGAD  240
MKPPLLGLPS PTLLLNQHQP TPASTLFMPF PSFSDHQQQP LLQPPPKRHH SVPDNLFLLH  300
NQPQPPPPAP AQCLPFPTLH SAVPFQLQPS MQHPRNAMKS TAAAAAAQQQ HLLDELAAAA  360
KATEVGNSIG AREILARLNQ QLPPIGKPFL RSASYLKDAL LLALADGHHA ATRLTSPLDV  420
ALKLTAYKSF SDLSPVLQFA NFTVTQALLD EIASTTASCI RVIDFDLGVG GQWASFLQEL  480
AHRCGSGGVS LPMLKLTAFV SAASHHPLEL HLTQDNLSQF AADLGIPFEF NAINLDAFDP  540
MELIAPTADE VVAVSLPVGC SARTPLPAML QLVKQLAPKI VVAIDYGSDR SDLPFSQHFL  600
NCLQSCLCLL ESLDAAGTDA DAVSKIERFL IQPRVEDAVL GRRRADKAIA WRTVLTSAGF  660
APQPLSNLAE AQADCLLKRV QVRGFHVEKR GAGLALYWQR GELVSVSAWR C*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5hyz_A8e-283527104375GRAS family transcription factor containing protein, expressed
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.208260.0callus| flower| leaf| panicle| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329859660.0
Expression AtlasQ7XT28-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os04g46860.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs04g46860
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL6066330.0AL606633.3 Oryza sativa genomic DNA, chromosome 4, BAC clone: OSJNBa0010H02, complete sequence.
GenBankAL6066470.0AL606647.3 Oryza sativa genomic DNA, chromosome 4, BAC clone: OSJNBb0012E24, complete sequence.
GenBankAP0149600.0AP014960.1 Oryza sativa Japonica Group DNA, chromosome 4, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015637143.10.0scarecrow-like protein 27
TrEMBLQ7XT280.0Q7XT28_ORYSJ; OSJNBa0010H02.25 protein
STRINGOS04T0555000-010.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP20203796
Representative plantOGRP17501242
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G00150.16e-83GRAS family protein