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 OPUNC11G12650.4
Organism
Oryza punctata
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 ARF
Protein Properties Length: 857aa    MW: 94504.2 Da    PI: 6.7107
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OPUNC11G12650.4genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.71e-23153254199
                      EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                      f+k+lt sd++++g +++ +++a+e+      + + + +++l+ +d++g +W++++i+r++++r++l++GW+ Fv+a++L +gD ++F   + +
  OPUNC11G12650.4 153 FCKTLTASDTSTHGGFSVLRRHADEClppldmSRQ-PPTQELVAKDLHGVEWRFRHIFRGQPRRHLLQSGWSVFVSAKRLVAGDAFIFL--RGE 243
                      99*****************************7333.34459************************************************..449 PP

                      EE..EEEEE-S CS
               B3  89 efelvvkvfrk 99 
                      ++el+v+v+r+
  OPUNC11G12650.4 244 NGELRVGVRRA 254
                      999*****996 PP
2Auxin_resp116.32.7e-38279361183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                      a+ha++t+++F+v+Y+Pr+s++eFvv++++++++lk+++s+GmRfkm+fe+e+++e+r++Gt+vg+ d+dp  Wp+SkWrsLk
  OPUNC11G12650.4 279 AWHAVNTGTMFTVYYKPRTSPAEFVVPYDRYMESLKRNYSIGMRFKMRFEGEEAPEQRFTGTIVGMGDSDPAGWPESKWRSLK 361
                      89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.1E-42144268IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.43E-41148282IPR015300DNA-binding pseudobarrel domain
CDDcd100177.34E-22151253No hitNo description
PfamPF023621.4E-21153254IPR003340B3 DNA binding domain
PROSITE profilePS5086311.899153255IPR003340B3 DNA binding domain
SMARTSM010199.9E-24153255IPR003340B3 DNA binding domain
PfamPF065071.2E-35279361IPR010525Auxin response factor
PfamPF023099.5E-11717813IPR033389AUX/IAA domain
SuperFamilySSF542771.13E-11726805No hitNo description
PROSITE profilePS5174521.936729813IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008285Biological Processnegative regulation of cell proliferation
GO:0009734Biological Processauxin-activated signaling pathway
GO:0009737Biological Processresponse to abscisic acid
GO:0009911Biological Processpositive regulation of flower development
GO:0010047Biological Processfruit dehiscence
GO:0010150Biological Processleaf senescence
GO:0010227Biological Processfloral organ abscission
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048481Biological Processplant ovule development
GO:0005634Cellular Componentnucleus
GO:0005515Molecular Functionprotein binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 857 aa     Download sequence    Send to blast
MATAEVEAAA VGVGVGGGEG DAAAVAVAAR GGGAAGGGED ALFTELWSAC AGPLVTVPRV  60
GEKVFYFPQG HIEQVEASTN QVGEQRMQLY NLPWKILCEV MNVELKAEPD TDEVYAQLTL  120
LPESKQQEDN GSTEEEVPSA PAAAHVRPRV HSFCKTLTAS DTSTHGGFSV LRRHADECLP  180
PLDMSRQPPT QELVAKDLHG VEWRFRHIFR GQPRRHLLQS GWSVFVSAKR LVAGDAFIFL  240
RGENGELRVG VRRAMRQQTN VPSSVISSHS MHLGVLATAW HAVNTGTMFT VYYKPRTSPA  300
EFVVPYDRYM ESLKRNYSIG MRFKMRFEGE EAPEQRFTGT IVGMGDSDPA GWPESKWRSL  360
KVRWDEASSI PRPERVSPWQ IEPAVSPPPV NPLPVPRTKR LRPNATALPA DSSAIAKEAA  420
PKVAVESEPN GMQRTFQTQE NATPKSGFGN SSELESAQKS IMRPSGFDRE KNNISTQWKL  480
GSDGRMQMIR PESYSEMLSG FQPPKDVQTP QGFCSLPEQI TAGHSNFWHT VNAQYQDQQS  540
NHNMFPSSWS FMPPNTGLGL NKQNYSMIQE VGGLSQRPGN TKFGNGVYAA LPGRGTEQYS  600
RGWFGHMMPN SHTDDTQPRL IKPKPLVVAH GDVQKAKGAS CKLFGIHLDS PAKSEPLKSP  660
SSVVYDGTPQ TPGATEWRRP DVTEVEKCSD PSKSMKPLDT PQADSVPEKP SSQQASRNMP  720
CKSQGVSTRS CKKVHKQGIA LGRSVDLTKF NGYEELIAEL DDMFDFNGEL KGPNKEWMVV  780
YTDNEGDMML VGDDPWIEFC DMVHKIFIYT REEVQRMNPG TLNSRSEDSH ANSIERGSVG  840
REMRGCLSTS SLNSENC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-176253831354Auxin response factor 1
4ldw_A1e-176253831354Auxin response factor 1
4ldw_B1e-176253831354Auxin response factor 1
4ldx_A1e-176253831354Auxin response factor 1
4ldx_B1e-176253831354Auxin response factor 1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtAuxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs).
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00574DAPTransfer from AT5G62000Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin under light or dark conditions and gravitropic stimulation of coleptile. {ECO:0000269|PubMed:12369618, ECO:0000269|PubMed:17408882}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ3063060.0AJ306306.1 Oryza sativa subsp. japonica mRNA for auxin response factor 1 (arf1 gene).
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015617186.10.0auxin response factor 23 isoform X1
RefseqXP_015617187.10.0auxin response factor 23 isoform X1
RefseqXP_015617188.10.0auxin response factor 23 isoform X2
SwissprotQ2R3F50.0ARFW_ORYSJ; Auxin response factor 23
TrEMBLA0A0E0MFV10.0A0A0E0MFV1_ORYPU; Auxin response factor
STRINGOPUNC11G12650.40.0(Oryza punctata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP117836111
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.30.0auxin response factor 2
Publications ? help Back to Top
  1. Contreras I,Ortiz-Zapater E,Castilho LM,Aniento F
    Characterization of Cop I coat proteins in plant cells.
    Biochem. Biophys. Res. Commun., 2000. 273(1): p. 176-82
    [PMID:10873582]
  2. Kobayashi-Uehara A,Shimosaka E,Handa H
    Cloning and expression analyses of cDNA encoding an ADP-ribosylation factor from wheat: tissue-specific expression of wheat ARF.
    Plant Sci., 2001. 160(3): p. 535-542
    [PMID:11166441]
  3. Ren H, et al.
    Combinative effects of a bacterial type-III effector and a biocontrol bacterium on rice growth and disease resistance.
    J. Biosci., 2006. 31(5): p. 617-27
    [PMID:17301500]
  4. Song Y,You J,Xiong L
    Characterization of OsIAA1 gene, a member of rice Aux/IAA family involved in auxin and brassinosteroid hormone responses and plant morphogenesis.
    Plant Mol. Biol., 2009. 70(3): p. 297-309
    [PMID:19266169]
  5. Kitajima A, et al.
    The rice alpha-amylase glycoprotein is targeted from the Golgi apparatus through the secretory pathway to the plastids.
    Plant Cell, 2009. 21(9): p. 2844-58
    [PMID:19767453]
  6. Kishimoto N, et al.
    Identification of the duplicated segments in rice chromosomes 1 and 5 by linkage analysis of cDNA markers of known functions.
    Theor. Appl. Genet., 1994. 88(6-7): p. 722-6
    [PMID:24186168]
  7. Sugano SS, et al.
    CRISPR/Cas9-mediated targeted mutagenesis in the liverwort Marchantia polymorpha L.
    Plant Cell Physiol., 2014. 55(3): p. 475-81
    [PMID:24443494]
  8. Kaneko K, et al.
    N-Glycomic and Microscopic Subcellular Localization Analyses of NPP1, 2 and 6 Strongly Indicate that trans-Golgi Compartments Participate in the Golgi to Plastid Traffic of Nucleotide Pyrophosphatase/Phosphodiesterases in Rice.
    Plant Cell Physiol., 2016. 57(8): p. 1610-28
    [PMID:27335351]