PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID OMERI11G12590.1
Organism
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: 859aa    MW: 94264.8 Da    PI: 7.0727
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OMERI11G12590.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.71e-23156257199
                      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   + +
  OMERI11G12590.1 156 FCKTLTASDTSTHGGFSVLRRHADEClppldmSRQ-PPTQELVAKDLHGVEWRFRHIFRGQPRRHLLQSGWSVFVSAKRLVAGDAFIFL--RGE 246
                      99*****************************7333.34459************************************************..449 PP

                      EE..EEEEE-S CS
               B3  89 efelvvkvfrk 99 
                      ++el+v+v+r+
  OMERI11G12590.1 247 NGELRVGVRRA 257
                      999*****996 PP

2Auxin_resp115.16.2e-38282364183
       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
  OMERI11G12590.1 282 AWHAVNTGTMFTVYYKPRTSPAEFVVPYDRYMETLKRNYSIGMRFKMRFEGEEAPEQRFTGTIVGMGDSDPAGWPESKWRSLK 364
                      89*******************************************************************************96 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.103.3E-42149271IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.02E-41151285IPR015300DNA-binding pseudobarrel domain
CDDcd100177.37E-22154256No hitNo description
SMARTSM010199.9E-24156258IPR003340B3 DNA binding domain
PROSITE profilePS5086311.899156258IPR003340B3 DNA binding domain
PfamPF023621.4E-21156257IPR003340B3 DNA binding domain
PfamPF065072.8E-35282364IPR010525Auxin response factor
PfamPF023091.2E-10713815IPR033389AUX/IAA domain
SuperFamilySSF542771.57E-11726807No hitNo description
PROSITE profilePS5174522.018731815IPR000270PB1 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: 859 aa     Download sequence    Send to blast
MATAEVGGGG GGEGDAAAAA VARAGGGGGG GGGGGGGGGG GEDALFTELW SACAGPLVTV  60
PRVGEKVFYF PQGHIEQVEA STNQVGEQRM QLYNLPWKIL CEVMNVELKA EPDTDEVYAQ  120
LTLLPESKQQ EDNGSTEEEV PSAPAAGHVR PRVHSFCKTL TASDTSTHGG FSVLRRHADE  180
CLPPLDMSRQ PPTQELVAKD LHGVEWRFRH IFRGQPRRHL LQSGWSVFVS AKRLVAGDAF  240
IFLRGENGEL RVGVRRAMRQ QTNVPSSVIS SHSMHLGVLA TAWHAVNTGT MFTVYYKPRT  300
SPAEFVVPYD RYMETLKRNY SIGMRFKMRF EGEEAPEQRF TGTIVGMGDS DPAGWPESKW  360
RSLKVRWDEA SSIPRPERVS PWQIEPAVSP PVNPLPVPRT KRLRPNATAL PADSSAIAKE  420
AATKVVVESE PNGTQRTFQT QENATPKSGF GNSSKLESAQ KSIMRPSGFD REKNNTPIQW  480
KLGSDGRMQM RRPESYSEML SGFQPPKDVQ TPQGFCSLPE QITAGHSNFW HTVNAQYQDQ  540
QSNRNMFPSS WSFMPPNTGL GLNKQNYSMI QEVGGLSQRH GNTKFGNGVY AALPGRGTEQ  600
YSGGWFGHMM PNSHMDDTQP CLIKPKPLVV AHGDVQKAKG ASCKLFGIHL DSPAKSEPLK  660
SPSSVVYDGT PQTPGATEWR RPDVTEVEKC SDPSKAMKPL DTPQADSVPE KPSSQQASRN  720
MSCKSQGVST RSCKKVHKQG IALGRSVDLT KFNGYEELIA ELDDMFDFNG ELKGPKKEWM  780
VVYTDNEGDM MLVGDDPWIE FCDMVHKIFI YTRDEVQRMN PGTLNSRSED SHANSMERGS  840
VGREMRGCLS TSSLNSENC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-177283862354Auxin response factor 1
4ldw_A1e-177283862354Auxin response factor 1
4ldw_B1e-177283862354Auxin 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
TrEMBLA0A0E0F6800.0A0A0E0F680_9ORYZ; Auxin response factor
STRINGOMERI11G12320.10.0(Oryza meridionalis)
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]