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_Os04g40930.1
Common NameLOC4336214, OJ000223_09.13, Os04g0486400, OsJ_15250, OSNPB_040486400
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 Trihelix
Protein Properties Length: 386aa    MW: 41926.8 Da    PI: 6.0253
Description Trihelix family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os04g40930.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1trihelix859.1e-2749117270
          trihelix   2 WtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekk 70 
                       W ++e+l+Li++rrem+++++++k++k+lWe++s++mre+gf rsp++C++kw+nl k++kk + ++++
  LOC_Os04g40930.1  49 WVQDETLCLIALRREMDSHFNTSKSNKHLWEAISARMREQGFDRSPTMCTDKWRNLLKEFKKARSHARG 117
                       ***************************************************************999876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS500908.29341105IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.603.0E-442109IPR009057Homeodomain-like
SMARTSM007172.5E-545107IPR001005SANT/Myb domain
CDDcd122033.88E-2847112No hitNo description
PfamPF138373.9E-1848119No hitNo description
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:0042802Molecular Functionidentical protein binding
GO:0043565Molecular Functionsequence-specific DNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009089anatomyendosperm
PO:0007042developmental stagewhole plant fruit formation stage
PO:0007633developmental stageendosperm development stage
Sequence ? help Back to Top
Protein Sequence    Length: 386 aa     Download sequence    Send to blast
MLLSGPSPQQ PTPPLLLPES SGEDGGHDSS SRAAASGGGG GPKKRAETWV QDETLCLIAL  60
RREMDSHFNT SKSNKHLWEA ISARMREQGF DRSPTMCTDK WRNLLKEFKK ARSHARGGGG  120
GGVGGGGAGT GGGNCPAKMA CYKEIDDLLK RRGKPTGGGG AAVGSGAVKS PTVTSKIDSY  180
LQFDKGFEDA SIPFGPVEAS GRSLLSVEDR LEPDSHPLAL TADAVATNGV NPWNWRDTST  240
NGGDNQVTFG GRVILVKWGD YTKRIGIDGT ADAIKEAIKS AFGLRTRRAF WLEDEDEVVR  300
SLDRDMPVGT YTLHLDTGMT IKLYMFENDE VRTEDKTFYT EEDFRDFLSR RGWTLLREYS  360
GYRIADTLDD LRPGVIYEGM RSLGD*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
2jmw_A7e-3843144186DNA binding protein GT-1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.189630.0callus| flower| leaf| panicle| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO273688960.0
Expression AtlasQ7XUC2-
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that binds specifically to the core DNA sequence 5'-GGTTAA-3'. May act as a molecular switch in response to light signals. {ECO:0000269|PubMed:10437822, ECO:0000269|PubMed:15044016, ECO:0000269|PubMed:7866025}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00640PBMTransfer from MDP0000164819Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os04g40930.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs04g40930
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1032960.0AK103296.1 Oryza sativa Japonica Group cDNA clone:J033125B02, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015635625.20.0trihelix transcription factor GT-4
SwissprotQ9FX531e-140TGT1_ARATH; Trihelix transcription factor GT-1
TrEMBLA0A0D9ZMC80.0A0A0D9ZMC8_9ORYZ; Uncharacterized protein
TrEMBLJ3JRU50.0J3JRU5_ORYSA; H0302E05.1 protein
TrEMBLQ7XUC20.0Q7XUC2_ORYSJ; OJ000223_09.13 protein
TrEMBLQ8GT420.0Q8GT42_ORYSI; RML1 protein
STRINGOGLUM04G16630.10.0(Oryza glumipatula)
STRINGOS04T0486400-010.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP56313752
Representative plantOGRP59331318
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G13450.11e-135Trihelix family protein
Publications ? help Back to Top
  1. Le Gourrierec J,Li YF,Zhou DX
    Transcriptional activation by Arabidopsis GT-1 may be through interaction with TFIIA-TBP-TATA complex.
    Plant J., 1999. 18(6): p. 663-8
    [PMID:10417717]