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 OPUNC01G41560.1
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: 758aa    MW: 85045.5 Da    PI: 8.6139
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OPUNC01G41560.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3727.4e-23129230199
                      EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                      f+k+lt sd++++g +++ +++a+e+       +++++  ++l+ +d++g  W++++i+r++++r++l++GW+ Fv++++L +gD ++F   + 
  OPUNC01G41560.1 129 FCKTLTASDTSTHGGFSVLRRHADEClppldmtQSPPT--QELVAKDLHGMDWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--RG 218
                      99*****************************7555544..58************************************************..44 PP

                      SEE..EEEEE-S CS
               B3  88 sefelvvkvfrk 99 
                      +++el+v+v+r+
  OPUNC01G41560.1 219 ENGELRVGVRRA 230
                      9999*****996 PP
2Auxin_resp109.24.4e-36255336183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                      a+ha++tks+F+v+Y+Pr+s+seF+++++++++++k+++sv mRf+m+fe+e+++e+r++Gt++g ++ldp  Wp+S WrsLk
  OPUNC01G41560.1 255 AWHAINTKSMFTVYYKPRTSPSEFIIPYDQYMESVKNNYSVAMRFRMRFEGEEAPEQRFTGTIIGSENLDP-LWPESSWRSLK 336
                      89*********************************************************************.9********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.66E-40121258IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.105.1E-40122244IPR015300DNA-binding pseudobarrel domain
CDDcd100173.41E-20127229No hitNo description
PROSITE profilePS5086311.787129231IPR003340B3 DNA binding domain
PfamPF023621.1E-20129230IPR003340B3 DNA binding domain
SMARTSM010194.0E-22129231IPR003340B3 DNA binding domain
PfamPF065071.1E-32255336IPR010525Auxin 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: 758 aa     Download sequence    Send to blast
MPPAAMAPPP PPHGSSTGDP LYDELWHACA GPLVTVPRIG DLVFYFPQGH IEQVEASMNQ  60
VANNQMRLYD LPSKLLCRVL NVELKAEQDT DEVYAQVMLM PEPEQNEMAV EKTTPTSGPV  120
QARPPVRSFC KTLTASDTST HGGFSVLRRH ADECLPPLDM TQSPPTQELV AKDLHGMDWR  180
FRHIFRGQPR RHLLQSGWSV FVSSKRLVAG DAFIFLRGEN GELRVGVRRA MRQLSNVPSS  240
VISSQSMHLG VLATAWHAIN TKSMFTVYYK PRTSPSEFII PYDQYMESVK NNYSVAMRFR  300
MRFEGEEAPE QRFTGTIIGS ENLDPLWPES SWRSLKVRWD EPSTIPRPDR VSPWKIEPAS  360
SPPVNPLPLS RVKRPRPNAP PASPESPILT KEAATKVDVD SAQAQRSQNS TVLQGQEQMT  420
LRNNLTESND SDVTAHKALM WTPSPNAAKA HPLSFQQRPP MDSWMQLGRR ETDFKDARSG  480
AQSFGDSQSF FMQNFDEAQN RLTSFKNQFQ DQGSARHFSD PYFFVPPQPS LTVESSTQMH  540
TDSKELHFWN GQSTVYGNSR DQPQNFRFEQ NSSGWLNQSF ARPEQPRVIR PHASIAPVEL  600
EKTGEGSGFK IFGFKVDTTN APNNHLSSPM AATHEPMLQT PSLNQLQPAQ TDCIPEVSVS  660
TAGTATENEK SAQQAQQSSK DVQSKSQVAS TRSCTKVHKQ GVALGRSVDL SKEFCSIVRK  720
IYIYTKEEVQ KMNSKSNAPK REDSAENEKG SVKRRYKR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1681436112357Auxin response factor 1
4ldw_A1e-1681436112357Auxin response factor 1
4ldw_B1e-1681436112357Auxin response factor 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1372376KRPRP
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
GenBankAK0723090.0AK072309.1 Oryza sativa Japonica Group cDNA clone:J023022C23, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015650953.10.0auxin response factor 4
SwissprotQ5JK200.0ARFD_ORYSJ; Auxin response factor 4
TrEMBLA0A0E0JT390.0A0A0E0JT39_ORYPU; Auxin response factor
STRINGOPUNC01G41560.10.0(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. 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. Song X, et al.
    Rice RNA-dependent RNA polymerase 6 acts in small RNA biogenesis and spikelet development.
    Plant J., 2012. 71(3): p. 378-89
    [PMID:22443269]
  3. 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]