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 ORGLA01G0237800.1
Organism
Oryza glaberrima
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
Family B3
Protein Properties Length: 289aa    MW: 31857.8 Da    PI: 8.2411
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA01G0237800.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B349.29.4e-1669166295
                        EEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS.-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                 B3   2 fkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesg.rsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                        +k+l  sdv+++gr+vlpkk ae++     +  k ++k l + d+++ + W++k++y  ++ks++yvl+ ++ ++v+ ++L+ gD++v++ d
  ORGLA01G0237800.1  69 QKELRYSDVSQLGRIVLPKKEAEAYlpiltS--KDGKKSLCMHDLQNaQLWTFKYRYwpNNKSRMYVLE-NTGDYVRTHDLQLGDSIVIYKD 157
                        688899**********************752..446678*****665599*******89999999**99.********************44 PP

                        SSSEE..EEE CS
                 B3  86 grsefelvvk 95 
                        + ++ ++v++
  ORGLA01G0237800.1 158 D-ENNRFVIG 166
                        4.55555665 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.109.8E-2467175IPR015300DNA-binding pseudobarrel domain
CDDcd100171.98E-2267165No hitNo description
SuperFamilySSF1019367.46E-1867165IPR015300DNA-binding pseudobarrel domain
SMARTSM010191.1E-1368171IPR003340B3 DNA binding domain
PROSITE profilePS508639.23468171IPR003340B3 DNA binding domain
PfamPF023621.4E-1269166IPR003340B3 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: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
Sequence ? help Back to Top
Protein Sequence    Length: 289 aa     Download sequence    Send to blast
MAGVTSKRRS SSASTSSSSG DGAAVSDRPR GVTRKRRSGG RCPRPAASLR PAAPRPSSHH  60
TAGLRVILQK ELRYSDVSQL GRIVLPKKEA EAYLPILTSK DGKKSLCMHD LQNAQLWTFK  120
YRYWPNNKSR MYVLENTGDY VRTHDLQLGD SIVIYKDDEN NRFVIGAKKA GDQQAATVPQ  180
VDEHISTLFP IFPIAQVDDY LSPMAPQVDI SAFVPHADEN HEIFDGILNS LPEIPVANVR  240
YSDFFDPFDD GMDMANTLNA NANQSASLHV TDDKSGHSLI PNPKSGPHM
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9b_A1e-39641801116B3 domain-containing transcription factor FUS3
6j9b_D1e-39641801116B3 domain-containing transcription factor FUS3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
13237TRKRRS
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
PlantRegMapORGLA01G0237800.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1099200.0AK109920.1 Oryza sativa Japonica Group cDNA clone:002-150-E10, full insert sequence.
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
TrEMBLA0A0D3ET930.0A0A0D3ET93_9ORYZ; Uncharacterized protein
TrEMBLA0A0D9YE120.0A0A0D9YE12_9ORYZ; Uncharacterized protein
TrEMBLA0A0E0N1L10.0A0A0E0N1L1_ORYRU; Uncharacterized protein
TrEMBLA0A0P0V7F20.0A0A0P0V7F2_ORYSJ; Os01g0713600 protein
TrEMBLI1NR880.0I1NR88_ORYGL; Uncharacterized protein
STRINGOGLUM01G32660.10.0(Oryza glumipatula)
STRINGORUFI01G31760.10.0(Oryza rufipogon)
STRINGOS01T0713600-010.0(Oryza sativa)
STRINGORGLA01G0237800.10.0(Oryza glaberrima)
STRINGOBART01G28660.10.0(Oryza barthii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP80912736
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G26790.11e-40B3 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. 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]
  3. 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]
  4. 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]