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_Os12g04200.1
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: 586aa    MW: 63953.2 Da    PI: 5.0176
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os12g04200.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS327.32.9e-1001675461373
              GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkf 93 
                       l+elL++cA+av+sg+ + a +lL++++ ++sp+gd+++Rla+yf+ +L+arla+   +l + l +s++++ +  e l a+++f  ++ +  +
  LOC_Os12g04200.1 167 LRELLMSCAQAVASGNRRSAGELLEQIKRHSSPTGDATERLAHYFADGLEARLAG-AASLEHRLLASAEERASAMELLEAYQVFMAACCFKWV 258
                       689***************************************************9.88999999999999999******************** PP

              GRAS  94 shltaNqaIleavegeervHiiDfdis.qGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAeelgvpfefnvlva 183
                       ++  aN aIl+a+eg ++vHi+D++ + +GlQWp+Llq La+R++gpp++R+T vg+p++g   +++le+tg+rL++ A+++g+pf+f++++a
  LOC_Os12g04200.1 259 AFTFANMAILRAAEGRSKVHIVDYGGQyHGLQWPSLLQRLAEREGGPPEVRMTLVGHPQPGfrPARRLERTGRRLSNCARAFGLPFKFRAVAA 351
                       ************************86538*************************************************************999 PP

              GRAS 184 krledleleeL.rvkpgE.alaVnlvlqlhrlldesvsles..erdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsle 272
                        r+e+++ e+   v+++E a++Vn vl+l +l+des+  ++  +rd+vL  +++++P v+v +  +  h+++ F +rf eal ++salfd+l+
  LOC_Os12g04200.1 352 ARWETVTAEDVvGVDHDEaAVVVNDVLSLGTLMDESGVFDDpsPRDTVLGSIRDMRPAVFVQAVVNGAHGAPFFPTRFREALFFFSALFDMLD 444
                       9*******99757888773699**************98877779************************************************9 PP

              GRAS 273 aklpres.eerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkd 364
                       a+ p+e  + r+++Er +l+r++v v+a egaer+er et+++W++r ++aG+++v+++ ++++ +++ +r+ + +++ +ee+ g+l++gWk+
  LOC_Os12g04200.1 445 ATTPEEGsHLRAVLERDVLRRAAVGVIAGEGAERVERPETYRRWQARNRRAGLRQVAVEADVVEAVRRRVRRRHHEEFVIEEDAGWLLQGWKG 537
                       9988876599****************************************************************999**************** PP

              GRAS 365 rpLvsvSaW 373
                       r L++ SaW
  LOC_Os12g04200.1 538 RILYAHSAW 546
                       ********* PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098555.858141527IPR005202Transcription factor GRAS
PfamPF035141.0E-97167546IPR005202Transcription 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: 586 aa     Download sequence    Send to blast
MGPAAPPSEA AAAADDVVLP YISRILMEED IDDDMFFCLY PDHPALLEAQ QPFAQILSSS  60
SGIAGEVNSA PMEDSAALMM QGSGNGRGRK GSKHGGDELE AEVGRASKLM ATPEEEDDDD  120
DGVGEMLEKM MLNGDEEMNA PRVPAEKNGG KAARRKRRQG KGEVVDLREL LMSCAQAVAS  180
GNRRSAGELL EQIKRHSSPT GDATERLAHY FADGLEARLA GAASLEHRLL ASAEERASAM  240
ELLEAYQVFM AACCFKWVAF TFANMAILRA AEGRSKVHIV DYGGQYHGLQ WPSLLQRLAE  300
REGGPPEVRM TLVGHPQPGF RPARRLERTG RRLSNCARAF GLPFKFRAVA AARWETVTAE  360
DVVGVDHDEA AVVVNDVLSL GTLMDESGVF DDPSPRDTVL GSIRDMRPAV FVQAVVNGAH  420
GAPFFPTRFR EALFFFSALF DMLDATTPEE GSHLRAVLER DVLRRAAVGV IAGEGAERVE  480
RPETYRRWQA RNRRAGLRQV AVEADVVEAV RRRVRRRHHE EFVIEEDAGW LLQGWKGRIL  540
YAHSAWVVAE DATSVGELTV VTTSLVAIIL SAASAQDELP LSTNE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A2e-3717454726379Protein SCARECROW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.535170.0callus| root
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329921100.0
Expression AtlasQ2QY14-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os12g04200.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs12g04200
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0149680.0AP014968.1 Oryza sativa Japonica Group DNA, chromosome 12, cultivar: Nipponbare, complete sequence.
GenBankBX0005020.0BX000502.2 Oryza sativa chromosome 12, . BAC OSJNBb0041E01 of library OSJNBb from chromosome 12 of cultivar Nipponbare of ssp. japonica of Oryza sativa (rice), complete sequence.
GenBankBX0005040.0BX000504.2 Oryza sativa chromosome 12, . BAC OJ1239_F07 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_015619736.10.0scarecrow-like protein 30
TrEMBLQ2QY140.0Q2QY14_ORYSJ; GRAS family transcription factor containing protein
STRINGORGLA12G0020400.10.0(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP160181014
Representative plantOGRP26615129
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G07530.15e-95SCARECROW-like 14
Publications ? help Back to Top
  1. Rice Chromosomes 11 and 12 Sequencing Consortia
    The sequence of rice chromosomes 11 and 12, rich in disease resistance genes and recent gene duplications.
    BMC Biol., 2005. 3: p. 20
    [PMID:16188032]