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 OMERI02G35490.1
Organism
Oryza meridionalis
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: 262aa    MW: 29259 Da    PI: 5.6304
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OMERI02G35490.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B333.67.1e-11148210158
                      EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTE CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgr 58 
                      f+k+lt sd++++g +++p++ ae++      + +++ s++l+ +d++g +W++++iyr++ ++
  OMERI02G35490.1 148 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyS-QQRPSQELVAKDLHGTEWRFRHIYRGRAEK 210
                      99****************************963.3445679*****************887765 PP
2Auxin_resp51.83.6e-182172581859
       Auxin_resp  18 rastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl 59 
                      + s+seF+v+++k++k+l++++svG Rfkm++e+ed+ err+
  OMERI02G35490.1 217 KLSQSEFIVPYWKFMKSLSQPFSVGLRFKMRYESEDATERRW 258
                      789**************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.4E-23139210IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.14E-30142207IPR015300DNA-binding pseudobarrel domain
CDDcd100174.01E-11146225No hitNo description
SMARTSM010191.4E-4148246IPR003340B3 DNA binding domain
PfamPF023623.3E-9148211IPR003340B3 DNA binding domain
PfamPF065077.7E-13216258IPR010525Auxin response factor
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
Sequence ? help Back to Top
Protein Sequence    Length: 262 aa     Download sequence    Send to blast
MTGIDLNTVE EDEEEAAEAN GSSPAPARAG AVCLELWHAC AGPVAPLPRK GGVVVYLPQG  60
HLEHLGDAPA AAAAAVPPHV FCRVVDVTLL ADAATDEVYA QLSLVPEKEF SSPLFFRGLK  120
EVARRADDGE GEDGDAMKQR FARMPHMFCK TLTASDTSTH GGFSVPRRAA EDCFPPLDYS  180
QQRPSQELVA KDLHGTEWRF RHIYRGRAEK NMDFENKLSQ SEFIVPYWKF MKSLSQPFSV  240
GLRFKMRYES EDATERRWRW LS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-52162503230Auxin response factor 1
4ldw_A1e-52162503230Auxin response factor 1
4ldw_B1e-52162503230Auxin response factor 1
4ldy_A1e-52162503230Auxin response factor 1
4ldy_B1e-52162503230Auxin 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 -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0712901e-142AB071290.1 Oryza sativa OsETTIN1 mRNA for Arabidopsis ETTIN-like protein 1, complete cds.
GenBankAK0997931e-142AK099793.1 Oryza sativa Japonica Group cDNA clone:J013097E23, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025881421.11e-101auxin response factor 15 isoform X1
RefseqXP_025881422.11e-101auxin response factor 15 isoform X2
SwissprotQ8S9851e-102ARFO_ORYSJ; Auxin response factor 15
TrEMBLA0A0E0CT910.0A0A0E0CT91_9ORYZ; Auxin response factor
STRINGOMERI02G34810.11e-115(Oryza meridionalis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP25373580
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.13e-67ARF family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]
  3. Khanday I,Yadav SR,Vijayraghavan U
    Rice LHS1/OsMADS1 controls floret meristem specification by coordinated regulation of transcription factors and hormone signaling pathways.
    Plant Physiol., 2013. 161(4): p. 1970-83
    [PMID:23449645]