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 AT2G36400.1
Common NameAtGRF3, F1O11.3, GRF3
Organism
Arabidopsis thaliana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family GRF
Protein Properties Length: 398aa    MW: 43707.3 Da    PI: 8.5051
Description growth-regulating factor 3
Gene Model
Gene Model ID Type Source Coding Sequence
AT2G36400.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1WRC81.38.5e-26144188145
          WRC   1 daepgrCrRtDGKkWRCsrrvlegkklCErHlhrgrsrsrkskee 45 
                  d+epgrCrRtDGKkWRCsr+v +g+k+CErH+hrgr+rsrk++e+
  AT2G36400.1 144 DPEPGRCRRTDGKKWRCSRDVFAGHKYCERHMHRGRNRSRKPVET 188
                  79****************************************996 PP
2QLQ53.66.7e-1975111137
          QLQ   1 saFTaaQlqlLksQilAyKyLaanqPvPpeLlqaiqk 37 
                  s F++aQ+q+L+ Q+l+y+y++a++ vP+eLl++i+k
  AT2G36400.1  75 SFFSWAQWQELELQALIYRYMLAGAAVPQELLLPIKK 111
                  67*********************************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM009515.3E-1275111IPR014978Glutamine-Leucine-Glutamine, QLQ
PROSITE profilePS5166620.24776111IPR014978Glutamine-Leucine-Glutamine, QLQ
PfamPF088806.9E-1377109IPR014978Glutamine-Leucine-Glutamine, QLQ
PROSITE profilePS5166726.046144188IPR014977WRC domain
PfamPF088799.5E-22145187IPR014977WRC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0006995Biological Processcellular response to nitrogen starvation
GO:0008285Biological Processnegative regulation of cell proliferation
GO:0009624Biological Processresponse to nematode
GO:0009631Biological Processcold acclimation
GO:0009873Biological Processethylene-activated signaling pathway
GO:0016036Biological Processcellular response to phosphate starvation
GO:0019222Biological Processregulation of metabolic process
GO:0048364Biological Processroot development
GO:0048366Biological Processleaf development
GO:0050826Biological Processresponse to freezing
GO:0051365Biological Processcellular response to potassium ion starvation
GO:0061062Biological Processregulation of nematode larval development
GO:0005634Cellular Componentnucleus
GO:0005737Cellular Componentcytoplasm
GO:0005515Molecular Functionprotein binding
GO:0005524Molecular FunctionATP binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000013anatomycauline leaf
PO:0000037anatomyshoot apex
PO:0000229anatomyflower meristem
PO:0000293anatomyguard cell
PO:0006339anatomyjuvenile vascular leaf
PO:0008019anatomyleaf lamina base
PO:0009005anatomyroot
PO:0009006anatomyshoot system
PO:0009009anatomyplant embryo
PO:0009010anatomyseed
PO:0009025anatomyvascular leaf
PO:0009030anatomycarpel
PO:0009031anatomysepal
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0009047anatomystem
PO:0009052anatomyflower pedicel
PO:0020038anatomypetiole
PO:0020100anatomyhypocotyl
PO:0020137anatomyleaf apex
PO:0020144anatomyapical meristem
PO:0025022anatomycollective leaf structure
PO:0025181anatomyroot elongation zone
PO:0001054developmental stagevascular leaf senescent stage
PO:0001078developmental stageplant embryo cotyledonary stage
PO:0001081developmental stagemature plant embryo stage
PO:0001185developmental stageplant embryo globular stage
PO:0004507developmental stageplant embryo bilateral stage
PO:0007064developmental stageLP.12 twelve leaves visible stage
PO:0007098developmental stageLP.02 two leaves visible stage
PO:0007103developmental stageLP.10 ten leaves visible stage
PO:0007115developmental stageLP.04 four leaves visible stage
PO:0007123developmental stageLP.06 six leaves visible stage
PO:0007130developmental stagesporophyte reproductive stage
PO:0007131developmental stageseedling development stage
PO:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 398 aa     Download sequence    Send to blast
MDLQLKQWRS QQQQQHQTES EEQPSAAKIP KHVFDQIHSH TATSTALPLF TPEPTSSKLS  60
SLSPDSSSRF PKMGSFFSWA QWQELELQAL IYRYMLAGAA VPQELLLPIK KSLLHLSPSY  120
FLHHPLQHLP HYQPAWYLGR AAMDPEPGRC RRTDGKKWRC SRDVFAGHKY CERHMHRGRN  180
RSRKPVETPT TVNATATSMA SSVAAAATTT TATTTSTFAF GGGGGSEEVV GQGGSFFFSG  240
SSNSSSELLH LSQSCSEMKQ ESNNMNNKRP YESHIGFSNN RSDGGHILRP FFDDWPRSSL  300
QEADNSSSPM SSATCLSISM PGNSSSDVSL KLSTGNEEGA RSNNNGRDQQ NMSWWSGGGS  360
NHHHHNMGGP LAEALRSSSS SSPTSVLHQL GVSTQAFH
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.438150.0flower| seed
Expression -- Microarray ? help Back to Top
Source ID E-value
Genevisible263914_at0.0
Expression AtlasAT2G36400-
AtGenExpressAT2G36400-
ATTED-IIAT2G36400-
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed during the early stages of leaf development and expression decreases with the maturation of the leaf. {ECO:0000269|PubMed:20023165}.
UniprotTISSUE SPECIFICITY: Strongly expressed in actively growing and developing tissues, such as roots, upper stems, and shoot tips containing the shoot apical meristem (SAM) and flower buds. Also expressed in mature flowers, but weakly expressed in mature stems and leaves. {ECO:0000269|PubMed:12974814}.
Functional Description ? help Back to Top
Source Description
TAIRGrowth regulating factor encoding transcription activator. One of the nine members of a GRF gene family, containing nuclear targeting domain. Mutants result in smaller leaves indicating the role of the gene in leaf development. Expressed in root, shoot and flower.
UniProtTranscription activator that plays a role in the regulation of cell expansion in leaf and cotyledons tissues. Component of a network formed by miR396, the GRFs and their interacting factors (GIFs) acting in the regulation of meristem function, at least partially through the control of cell proliferation. microRNA396-GRF1/GRF3 regulatory module acts as a developmental regulator in the reprogramming of root cells during cyst nematode infection, leading to the formation of the syncytium. {ECO:0000269|PubMed:12974814, ECO:0000269|PubMed:22419826}.
Function -- GeneRIF ? help Back to Top
  1. GRF1 and GRF3 are posttranscriptionally regulated by miR396 during nematode infection.
    [PMID: 22419826]
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT2G36400.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: microRNA 396 (miR396a or miR396b) negatively regulates growth-regulating factors (GRF1-4 and GRF7-9). Up-regulated in response to cyst nematode infection. {ECO:0000269|PubMed:15200956, ECO:0000269|PubMed:19453503, ECO:0000269|PubMed:20023165, ECO:0000269|PubMed:22419826}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT2G36400
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY1026360.0AY102636.1 Arabidopsis thaliana transcription activator (GRF3) mRNA, complete cds.
GenBankBT0264720.0BT026472.1 Arabidopsis thaliana At2g36400 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_181181.10.0growth-regulating factor 3
SwissprotQ9SJR50.0GRF3_ARATH; Growth-regulating factor 3
TrEMBLA0A178VSH70.0A0A178VSH7_ARATH; GRF3
STRINGAT2G36400.10.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM19262667
Representative plantOGRP9959611
Publications ? help Back to Top
  1. Seki M, et al.
    Functional annotation of a full-length Arabidopsis cDNA collection.
    Science, 2002. 296(5565): p. 141-5
    [PMID:11910074]
  2. Kim JH,Choi D,Kende H
    The AtGRF family of putative transcription factors is involved in leaf and cotyledon growth in Arabidopsis.
    Plant J., 2003. 36(1): p. 94-104
    [PMID:12974814]
  3. Jones-Rhoades MW,Bartel DP
    Computational identification of plant microRNAs and their targets, including a stress-induced miRNA.
    Mol. Cell, 2004. 14(6): p. 787-99
    [PMID:15200956]
  4. Kim JH,Kende H
    A transcriptional coactivator, AtGIF1, is involved in regulating leaf growth and morphology in Arabidopsis.
    Proc. Natl. Acad. Sci. U.S.A., 2004. 101(36): p. 13374-9
    [PMID:15326298]
  5. Wang XJ,Reyes JL,Chua NH,Gaasterland T
    Prediction and identification of Arabidopsis thaliana microRNAs and their mRNA targets.
    Genome Biol., 2004. 5(9): p. R65
    [PMID:15345049]
  6. Lobbes D,Rallapalli G,Schmidt DD,Martin C,Clarke J
    SERRATE: a new player on the plant microRNA scene.
    EMBO Rep., 2006. 7(10): p. 1052-8
    [PMID:16977334]
  7. Ascencio-Ib
    Global analysis of Arabidopsis gene expression uncovers a complex array of changes impacting pathogen response and cell cycle during geminivirus infection.
    Plant Physiol., 2008. 148(1): p. 436-54
    [PMID:18650403]
  8. Liu D,Song Y,Chen Z,Yu D
    Ectopic expression of miR396 suppresses GRF target gene expression and alters leaf growth in Arabidopsis.
    Physiol Plant, 2009. 136(2): p. 223-36
    [PMID:19453503]
  9. Rodriguez RE, et al.
    Control of cell proliferation in Arabidopsis thaliana by microRNA miR396.
    Development, 2010. 137(1): p. 103-12
    [PMID:20023165]
  10. Brady SM, et al.
    A stele-enriched gene regulatory network in the Arabidopsis root.
    Mol. Syst. Biol., 2011. 7: p. 459
    [PMID:21245844]
  11. Gaudinier A, et al.
    Enhanced Y1H assays for Arabidopsis.
    Nat. Methods, 2011. 8(12): p. 1053-5
    [PMID:22037706]
  12. Hewezi T,Maier TR,Nettleton D,Baum TJ
    The Arabidopsis microRNA396-GRF1/GRF3 regulatory module acts as a developmental regulator in the reprogramming of root cells during cyst nematode infection.
    Plant Physiol., 2012. 159(1): p. 321-35
    [PMID:22419826]
  13. Casadevall R,Rodriguez RE,Debernardi JM,Palatnik JF,Casati P
    Repression of growth regulating factors by the microRNA396 inhibits cell proliferation by UV-B radiation in Arabidopsis leaves.
    Plant Cell, 2013. 25(9): p. 3570-83
    [PMID:24076976]
  14. Liang G,He H,Li Y,Wang F,Yu D
    Molecular mechanism of microRNA396 mediating pistil development in Arabidopsis.
    Plant Physiol., 2014. 164(1): p. 249-58
    [PMID:24285851]
  15. Vercruyssen L, et al.
    ANGUSTIFOLIA3 binds to SWI/SNF chromatin remodeling complexes to regulate transcription during Arabidopsis leaf development.
    Plant Cell, 2014. 26(1): p. 210-29
    [PMID:24443518]
  16. Liu J,Rice JH,Chen N,Baum TJ,Hewezi T
    Synchronization of developmental processes and defense signaling by growth regulating transcription factors.
    PLoS ONE, 2014. 9(5): p. e98477
    [PMID:24875638]
  17. Debernardi JM, et al.
    Post-transcriptional control of GRF transcription factors by microRNA miR396 and GIF co-activator affects leaf size and longevity.
    Plant J., 2014. 79(3): p. 413-26
    [PMID:24888433]
  18. Rodriguez RE, et al.
    MicroRNA miR396 Regulates the Switch between Stem Cells and Transit-Amplifying Cells in Arabidopsis Roots.
    Plant Cell, 2015. 27(12): p. 3354-66
    [PMID:26645252]
  19. Cao Y,Han Y,Jin Q,Lin Y,Cai Y
    Comparative Genomic Analysis of the GRF Genes in Chinese Pear (Pyrus bretschneideri Rehd), Poplar (Populous), Grape (Vitis vinifera), Arabidopsis and Rice (Oryza sativa).
    Front Plant Sci, 2016. 7: p. 1750
    [PMID:27933074]