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_Os01g51610.1
Common NameB1142C05.32, LFL1, LOC4325939, Os01g0713600
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 B3
Protein Properties Length: 403aa    MW: 43408.9 Da    PI: 9.6256
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os01g51610.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B348.31.8e-15182279295
                       EEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS.-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                B3   2 fkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesg.rsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                       +k+l  sdv+++gr+vlpkk ae++     +  k ++k l + d+++ + W++k++y  ++ks++yvl+ ++ ++v+ ++L+ gD++v++ d+
  LOC_Os01g51610.1 182 QKELRYSDVSQLGRIVLPKKEAEAYlpiltS--KDGKKSLCMHDLQNaQLWTFKYRYwpNNKSRMYVLE-NTGDYVRTHDLQLGDSIVIYKDD 271
                       688899**********************752..446678*****665599*******89999999**99.********************444 PP

                       SSEE..EEE CS
                B3  87 rsefelvvk 95 
                        ++ ++v++
  LOC_Os01g51610.1 272 -ENNRFVIG 279
                       .55555665 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.9E-23180288IPR015300DNA-binding pseudobarrel domain
CDDcd100176.14E-22180278No hitNo description
SuperFamilySSF1019361.43E-17180278IPR015300DNA-binding pseudobarrel domain
SMARTSM010191.1E-13181284IPR003340B3 DNA binding domain
PROSITE profilePS508639.234181284IPR003340B3 DNA binding domain
PfamPF023623.0E-12182279IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0008284Biological Processpositive regulation of cell proliferation
GO:0009733Biological Processresponse to auxin
GO:0009908Biological Processflower development
GO:0010116Biological Processpositive regulation of abscisic acid biosynthetic process
GO:0010262Biological Processsomatic embryogenesis
GO:0010373Biological Processnegative regulation of gibberellin biosynthetic process
GO:0048573Biological Processphotoperiodism, flowering
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0025281anatomypollen
PO:0001015developmental stageK second mitotic division stage
PO:0007130developmental stagesporophyte reproductive stage
Sequence ? help Back to Top
Protein Sequence    Length: 403 aa     Download sequence    Send to blast
MRGEERWQEQ PALASHPSRA TLRPRGWPRL GLAPTGVGSS CPPAPASELA RHLARRAPVS  60
ASPPVLPPIK DQGARPPTLA ASAAAASSPP PPPPPPIPPL PPSTSTSAAR PTDMAGVTSK  120
RRSSSASTSS SSGDGAAVSD RPRGVTRKRR SGGRCPRPAA SLRPAAPRPS SHHTAGLRVI  180
LQKELRYSDV SQLGRIVLPK KEAEAYLPIL TSKDGKKSLC MHDLQNAQLW TFKYRYWPNN  240
KSRMYVLENT GDYVRTHDLQ LGDSIVIYKD DENNRFVIGA KKAGDQQAAT VPQVDEHIST  300
LFPIFPIAQV DDYLSPMAPQ VDISAFVPHA DENHEIFDGI LNSLPEIPVA NVRYSDFFDP  360
FDDGMDMANT LNANANQSAS LHVTDDKSGH SLIPNPKSGP HM*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9b_A1e-391772911114B3 domain-containing transcription factor FUS3
6j9b_D1e-391772911114B3 domain-containing transcription factor FUS3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1145150TRKRRS
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.89880.0callus| seed
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1342441950.0
Expression AtlasA4LBC0-
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in anthers, pollen grains and young developing embryos. {ECO:0000269|PubMed:17913295}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription repressor involved in flowering time regulation. Represses the flowering activator EHD1 by binding specifically to the DNA sequence 5'-CATGCATG-3 of its promoter. {ECO:0000269|PubMed:17592727, ECO:0000269|PubMed:17913295}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00382DAPTransfer from AT3G26790Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os01g51610.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs01g51610
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEF5211820.0EF521182.1 Orayza sativa japonica LFL1 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015635173.10.0B3 domain-containing protein LFL1 isoform X4
SwissprotA4LBC00.0LFL1_ORYSJ; B3 domain-containing protein LFL1
TrEMBLA0A0E0N1L10.0A0A0E0N1L1_ORYRU; Uncharacterized protein
STRINGORUFI01G31760.10.0(Oryza rufipogon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP80912736
Representative plantOGRP7881766
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G26790.12e-39B3 family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Peng LT,Shi ZY,Li L,Shen GZ,Zhang JL
    Ectopic expression of OsLFL1 in rice represses Ehd1 by binding on its promoter.
    Biochem. Biophys. Res. Commun., 2007. 360(1): p. 251-6
    [PMID:17592727]
  3. Peng LT,Shi ZY,Li L,Shen GZ,Zhang JL
    Overexpression of transcription factor OsLFL1 delays flowering time in Oryza sativa.
    J. Plant Physiol., 2008. 165(8): p. 876-85
    [PMID:17913295]
  4. Yang J, et al.
    OsVIL2 functions with PRC2 to induce flowering by repressing OsLFL1 in rice.
    Plant J., 2013. 73(4): p. 566-78
    [PMID:23083333]
  5. Guo X, et al.
    The rice GERMINATION DEFECTIVE 1, encoding a B3 domain transcriptional repressor, regulates seed germination and seedling development by integrating GA and carbohydrate metabolism.
    Plant J., 2013. 75(3): p. 403-16
    [PMID:23581288]
  6. Matsuno K,Fujimura T
    Do rice suspension-cultured cells treated with abscisic acid mimic developing seeds?
    Mol. Genet. Genomics, 2015. 290(4): p. 1551-62
    [PMID:25732383]