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_Os05g50270.1
Common NameLOC4339709, NL1, OJ1126_B10.17, Os05g0578900, OsJ_19663, OSJNBa0017N18.4, OSNPB_050578900
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 GATA
Protein Properties Length: 280aa    MW: 28292.1 Da    PI: 7.1949
Description GATA family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os05g50270.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GATA62.83.9e-20154188135
              GATA   1 CsnCgttkTplWRrgpdgnktLCnaCGlyyrkkgl 35 
                       C+nCgt +TplWR+gp+g+k+LCnaCG++y+k+++
  LOC_Os05g50270.1 154 CANCGTASTPLWRNGPRGPKSLCNACGIRYKKEER 188
                       ********************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004015.0E-20148200IPR000679Zinc finger, GATA-type
SuperFamilySSF577161.05E-13151189No hitNo description
Gene3DG3DSA:3.30.50.104.1E-17152188IPR013088Zinc finger, NHR/GATA-type
PROSITE profilePS5011413.916152184IPR000679Zinc finger, GATA-type
CDDcd002021.43E-14153185No hitNo description
PfamPF003207.8E-18154188IPR000679Zinc finger, GATA-type
PROSITE patternPS003440154179IPR000679Zinc finger, GATA-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0030154Biological Processcell differentiation
GO:0045944Biological Processpositive regulation of transcription from RNA polymerase II promoter
GO:0005634Cellular Componentnucleus
GO:0005667Cellular Componenttranscription factor complex
GO:0000977Molecular FunctionRNA polymerase II regulatory region sequence-specific DNA binding
GO:0001085Molecular FunctionRNA polymerase II transcription factor binding
GO:0001228Molecular Functiontranscriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding
GO:0003682Molecular Functionchromatin binding
GO:0008270Molecular Functionzinc ion binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009049anatomyinflorescence
PO:0001083developmental stageinflorescence development stage
PO:0007006developmental stageIL.00 inflorescence just visible stage
Sequence ? help Back to Top
Protein Sequence    Length: 280 aa     Download sequence    Send to blast
MLHHYYSGGA GHHQDVAAAG SPGDMASSTF SLFFPMSNGQ CWPPSTVEES AAYDDHSTVT  60
TSPSSPSSSS TGSVDCTLSL GTPSSRRAEP VAAAAPAANH GAPVPAHYPS LSAATVSWDA  120
TAESYYCGQQ GRPATGAAKC AAGAGHDALL DRRCANCGTA STPLWRNGPR GPKSLCNACG  180
IRYKKEERRA AATTTTADGA AGCGFITAQR GRGSTAAKAA PAVTTCGEET SPYVVGGGGG  240
GGEVADAAYL AWRLNVVPPA ATATAFSVWP ERASLYHYN*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.535930.0callus| panicle
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329864960.0
Expression AtlasQ6L5E5-
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed predominantly in the bract primordia during panicle development. {ECO:0000269|PubMed:19337211}.
UniprotTISSUE SPECIFICITY: Highly expressed in inflorescences. Expressed in vascular bundles of root stele within the elongation zones, of elongating upper internodes and of the junctions of leaf blades and sheaths. {ECO:0000269|PubMed:19337211}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that regulates organogenesis during transition from the vegetative to the reproductive phase. Regulates the expression of CYP78A11/PLA1, HD3A and MADS1 during reproductive development in rice. May act upstream of CYP78A11/PLA1 during panicle development. Acts independently of the photoperiodic and gibberellin signaling pathways. {ECO:0000269|PubMed:19337211}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os05g50270.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs05g50270
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0734640.0AK073464.1 Oryza sativa Japonica Group cDNA clone:J033044C20, full insert sequence.
GenBankAK1012870.0AK101287.1 Oryza sativa Japonica Group cDNA clone:J033033F09, full insert sequence.
GenBankDQ7845460.0DQ784546.1 Oryza sativa Japonica Group putative NECK LEAF 1 (NL1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015638999.10.0GATA transcription factor 15
SwissprotQ6L5E50.0GAT15_ORYSJ; GATA transcription factor 15
TrEMBLA0A0E0PRP00.0A0A0E0PRP0_ORYRU; Uncharacterized protein
STRINGORUFI05G28920.10.0(Oryza rufipogon)
STRINGOS05T0578900-010.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP166537102
Representative plantOGRP6817287
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G36620.14e-23GATA transcription factor 19
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. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]
  3. Wang L, et al.
    NECK LEAF 1, a GATA type transcription factor, modulates organogenesis by regulating the expression of multiple regulatory genes during reproductive development in rice.
    Cell Res., 2009. 19(5): p. 598-611
    [PMID:19337211]