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 ORUFI11G16290.2
Organism
Oryza rufipogon
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: 852aa    MW: 94080.8 Da    PI: 6.8801
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORUFI11G16290.2genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.81e-23137238199
                      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   + +
  ORUFI11G16290.2 137 FCKTLTASDTSTHGGFSVLRRHADEClppldmSRQ-PPTQELVAKDLHGVEWRFRHIFRGQPRRHLLQSGWSVFVSAKRLVAGDAFIFL--RGE 227
                      99*****************************7333.34459************************************************..449 PP

                      EE..EEEEE-S CS
               B3  89 efelvvkvfrk 99 
                      ++el+v+v+r+
  ORUFI11G16290.2 228 NGELRVGVRRA 238
                      999*****996 PP
2Auxin_resp116.91.7e-38263345183
       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
  ORUFI11G16290.2 263 AWHAVNTGTMFTVYYKPRTSPAEFVVPYDRYMESLKQNYSIGMRFKMRFEGEEAPEQRFTGTIVGMGDSDPAGWPESKWRSLK 345
                      89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.103.2E-42130252IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.02E-41132266IPR015300DNA-binding pseudobarrel domain
CDDcd100177.25E-22135237No hitNo description
SMARTSM010199.9E-24137239IPR003340B3 DNA binding domain
PfamPF023621.3E-21137238IPR003340B3 DNA binding domain
PROSITE profilePS5086311.899137239IPR003340B3 DNA binding domain
PfamPF065078.4E-36263345IPR010525Auxin response factor
SuperFamilySSF542771.47E-11708789No hitNo description
PROSITE profilePS5174521.936713797IPR000270PB1 domain
PfamPF023092.2E-6759797IPR033389AUX/IAA domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009734Biological Processauxin-activated signaling pathway
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 852 aa     Download sequence    Send to blast
MATAEVGGGG AGGGGGGGGG GGEDALFTEL WSACAGPLVT VPRVGEKVFY FPQGHIEQVE  60
ASTNQVGEQR MQLYNLPWKI LCEVMNVELK AEPDTDEVYA QLTLLPESKQ QEDNGSTEEE  120
VPSAPAAGHV RPRVHSFCKT LTASDTSTHG GFSVLRRHAD ECLPPLDMSR QPPTQELVAK  180
DLHGVEWRFR HIFRGQPRRH LLQSGWSVFV SAKRLVAGDA FIFLRGENGE LRVGVRRAMR  240
QQTNVPSSVI SSHSMHLGVL ATAWHAVNTG TMFTVYYKPR TSPAEFVVPY DRYMESLKQN  300
YSIGMRFKMR FEGEEAPEQR FTGTIVGMGD SDPAGWPESK WRSLKVRWDE ASSIPRPERV  360
SPWQIEPAVS PPPVNPLPVP RTKRLRPNAT ALPADSSAIA KEAATKVVVE SEPNGTQRTF  420
QTQENATPKS GFGNSSELES AQKSIMRPSG FDREKNNTPI QWKLGSDGRM QMSKPESYSE  480
MLSGFQPPKD VQIPQGFCSL PEQITAGHSN FWHTVNAQYQ DQQSNHNMFP SSWSFMPPNT  540
RLGLNKQNYS MIQEAGVLSQ RPGNTKFGNG VYAALPGRGT EQYSGGWFGH MMPNSHMDDT  600
QPRLIKPKPL VVAHGDVQKA KGASCKLFGI HLDSPAKSEP LKSPSSVVYD GTPQTPGATE  660
WRRPDVTEVE KCSDPSKAMK PLDTPQPDSV PEKPSSQQAS RNMSCKSQGV STRSCKKVHK  720
QGIALGRSVD LTKFNGYEEL IAELDDMFDF NGELKGPKKE WMVVYTDNEG DMMLVGDDPW  780
IEFCDMVHKI FIYTREEVQR MNPGTLNSRS EDSHANSMER GSVGREMRGC LSTSFAPVQP  840
DGTGYLSCYL AT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-17793672354Auxin response factor 1
4ldw_A1e-17793672354Auxin response factor 1
4ldw_B1e-17793672354Auxin response factor 1
4ldx_A1e-17793672354Auxin response factor 1
4ldx_B1e-17793672354Auxin 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).
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
PlantRegMapRetrieve-
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
TrEMBLA0A0E0R9370.0A0A0E0R937_ORYRU; Auxin response factor
STRINGORUFI11G16290.20.0(Oryza rufipogon)
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]