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 OPUNC11G12650.3
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: 828aa    MW: 92225.8 Da    PI: 6.8803
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OPUNC11G12650.3genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.89.9e-24124225199
                      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   + +
  OPUNC11G12650.3 124 FCKTLTASDTSTHGGFSVLRRHADEClppldmSRQ-PPTQELVAKDLHGVEWRFRHIFRGQPRRHLLQSGWSVFVSAKRLVAGDAFIFL--RGE 214
                      99*****************************7333.34459************************************************..449 PP

                      EE..EEEEE-S CS
               B3  89 efelvvkvfrk 99 
                      ++el+v+v+r+
  OPUNC11G12650.3 215 NGELRVGVRRA 225
                      999*****996 PP
2Auxin_resp116.32.5e-38250332183
       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
  OPUNC11G12650.3 250 AWHAVNTGTMFTVYYKPRTSPAEFVVPYDRYMESLKRNYSIGMRFKMRFEGEEAPEQRFTGTIVGMGDSDPAGWPESKWRSLK 332
                      89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.0E-42115239IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.34E-41119253IPR015300DNA-binding pseudobarrel domain
CDDcd100176.87E-22122224No hitNo description
SMARTSM010199.9E-24124226IPR003340B3 DNA binding domain
PfamPF023621.3E-21124225IPR003340B3 DNA binding domain
PROSITE profilePS5086311.899124226IPR003340B3 DNA binding domain
PfamPF065071.2E-35250332IPR010525Auxin response factor
PfamPF023098.9E-11688784IPR033389AUX/IAA domain
SuperFamilySSF542771.08E-11697776No hitNo description
PROSITE profilePS5174521.936700784IPR000270PB1 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: 828 aa     Download sequence    Send to blast
MATAEVEAAA DALFTELWSA CAGPLVTVPR VGEKVFYFPQ GHIEQVEAST NQVGEQRMQL  60
YNLPWKILCE VMNVELKAEP DTDEVYAQLT LLPESKQQED NGSTEEEVPS APAAAHVRPR  120
VHSFCKTLTA SDTSTHGGFS VLRRHADECL PPLDMSRQPP TQELVAKDLH GVEWRFRHIF  180
RGQPRRHLLQ SGWSVFVSAK RLVAGDAFIF LRGENGELRV GVRRAMRQQT NVPSSVISSH  240
SMHLGVLATA WHAVNTGTMF TVYYKPRTSP AEFVVPYDRY MESLKRNYSI GMRFKMRFEG  300
EEAPEQRFTG TIVGMGDSDP AGWPESKWRS LKVRWDEASS IPRPERVSPW QIEPAVSPPP  360
VNPLPVPRTK RLRPNATALP ADSSAIAKEA APKVAVESEP NGMQRTFQTQ ENATPKSGFG  420
NSSELESAQK SIMRPSGFDR EKNNISTQWK LGSDGRMQMI RPESYSEMLS GFQPPKDVQT  480
PQGFCSLPEQ ITAGHSNFWH TVNAQYQDQQ SNHNMFPSSW SFMPPNTGLG LNKQNYSMIQ  540
EVGGLSQRPG NTKFGNGVYA ALPGRGTEQY SRGWFGHMMP NSHTDDTQPR LIKPKPLVVA  600
HGDVQKAKGA SCKLFGIHLD SPAKSEPLKS PSSVVYDGTP QTPGATEWRR PDVTEVEKCS  660
DPSKSMKPLD TPQADSVPEK PSSQQASRNM PCKSQGVSTR SCKKVHKQGI ALGRSVDLTK  720
FNGYEELIAE LDDMFDFNGE LKGPNKEWMV VYTDNEGDMM LVGDDPWIEF CDMVHKIFIY  780
TREEVQRMNP GTLNSRSEDS HANSIERGSV GREMRGCLST SSLNSENC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1761035416354Auxin response factor 1
4ldw_A1e-1761035416354Auxin response factor 1
4ldw_B1e-1761035416354Auxin 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
TrEMBLA0A0E0MFV00.0A0A0E0MFV0_ORYPU; Auxin response factor
STRINGOPUNC11G12650.40.0(Oryza punctata)
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]