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_Os04g55970.1
Common NameOsJ_16445, OSJNBb0022F16.3
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 AP2
Protein Properties Length: 276aa    MW: 29841.8 Da    PI: 6.7413
Description AP2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os04g55970.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP253.46.3e-172576155
               AP2  1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55
                      s y+GV+++++ grW A+I  +     +k  +lg+fgt+eeAa+a++ a+ k++g
  LOC_Os04g55970.1 25 SIYRGVTRHHQHGRWQARIGRVAG---NKDLYLGTFGTEEEAAEAYDIAAIKFRG 76
                      57****************988532...5************************998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008471.4E-112576IPR001471AP2/ERF domain
SuperFamilySSF541714.12E-182585IPR016177DNA-binding domain
CDDcd000183.37E-252585No hitNo description
SMARTSM003803.0E-322690IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.105.7E-182684IPR001471AP2/ERF domain
PROSITE profilePS5103219.1372684IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009845Biological Processseed germination
GO:0040019Biological Processpositive regulation of embryonic development
GO:0048364Biological Processroot development
GO:0060772Biological Processleaf phyllotactic patterning
GO:0060774Biological Processauxin mediated signaling pathway involved in phyllotactic patterning
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 276 aa     Download sequence    Send to blast
MKHMTRQEFV ASLRRKSSGF SRGASIYRGV TRHHQHGRWQ ARIGRVAGNK DLYLGTFGTE  60
EEAAEAYDIA AIKFRGLNAV TNFEIGRYNV ESIISSNLPI GSMAGNRSTK AGLELAPSSS  120
ADAIAATEAN HTGVAPPSTL AFTALPMKYD QADYLSYLAL QHHQQGNLQG LGFGLYSSGV  180
NLDFANANGN GAMSNCYTNV SLHEQQQQHQ HQHQQEQQQD QQDDQSQSSN NSCGSIPFAT  240
PIAFSGSYES SMTAAGTFGY YPNVAAFQTP IFGME*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.95970.0callus| panicle| root| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO213042240.0
Expression AtlasQ7XTE2-
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Present in inflorescence meristem and later in young floral mersitems. Expressed in sepal, petal, stamen and carpel primordia. In petal, progressively confined to petal margin and epidermal cells. Restricted to sporogenous tissue in the stamen and to the medial ridge of the carpel. Present in tissues that develop from this ridge, such as placenta and ovule primordia. In ovules, first expressed in distal part of the funiculus and the outer integument, before being confined to the funiculus. {ECO:0000269|PubMed:15988559}.
UniprotTISSUE SPECIFICITY: Expressed in roots, seedlings, inflorescence, and siliques. Also detected at low levels in leaves. {ECO:0000269|PubMed:15988559}.
Functional Description ? help Back to Top
Source Description
UniProtProbably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). Involved in the regulation of floral organs size. {ECO:0000250, ECO:0000269|PubMed:15988559}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os04g55970.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs04g55970
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1118910.0AK111891.1 Oryza sativa Japonica Group cDNA clone:J033072A06, full insert sequence.
GenBankAY0621790.0AY062179.1 Oryza sativa aintegumenta-like protein mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015633701.10.0AP2-like ethylene-responsive transcription factor AIL5 isoform X2
SwissprotQ6PQQ35e-62AIL5_ARATH; AP2-like ethylene-responsive transcription factor AIL5
TrEMBLA0A0D9ZRR60.0A0A0D9ZRR6_9ORYZ; Uncharacterized protein
TrEMBLA0A0E0PF080.0A0A0E0PF08_ORYRU; Uncharacterized protein
TrEMBLQ7XTE20.0Q7XTE2_ORYSJ; OSJNBb0022F16.3 protein
TrEMBLQ8LGQ40.0Q8LGQ4_ORYSA; Aintegumenta-like protein
STRINGOGLUM04G27700.10.0(Oryza glumipatula)
STRINGORUFI04G29440.10.0(Oryza rufipogon)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G57390.11e-58AINTEGUMENTA-like 5
Publications ? help Back to Top
  1. Todd J,Post-Beittenmiller D,Jaworski JG
    KCS1 encodes a fatty acid elongase 3-ketoacyl-CoA synthase affecting wax biosynthesis in Arabidopsis thaliana.
    Plant J., 1999. 17(2): p. 119-30
    [PMID:10074711]
  2. Molitor AM,Bu Z,Yu Y,Shen WH
    Arabidopsis AL PHD-PRC1 complexes promote seed germination through H3K4me3-to-H3K27me3 chromatin state switch in repression of seed developmental genes.
    PLoS Genet., 2014. 10(1): p. e1004091
    [PMID:24465219]
  3. Feng J,Chen D,Berr A,Shen WH
    ZRF1 Chromatin Regulators Have Polycomb Silencing and Independent Roles in Development.
    Plant Physiol., 2016. 172(3): p. 1746-1759
    [PMID:27630184]
  4. Santuari L, et al.
    The PLETHORA Gene Regulatory Network Guides Growth and Cell Differentiation in Arabidopsis Roots.
    Plant Cell, 2016. 28(12): p. 2937-2951
    [PMID:27920338]
  5. Du Y,Scheres B
    PLETHORA transcription factors orchestrate de novo organ patterning during Arabidopsis lateral root outgrowth.
    Proc. Natl. Acad. Sci. U.S.A., 2017. 114(44): p. 11709-11714
    [PMID:29078398]