PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID ORGLA01G0363100.1
Organism
Oryza glaberrima
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: 810aa    MW: 90984.8 Da    PI: 6.3934
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA01G0363100.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B369.64.1e-22131232199
                        EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                 B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                        f+k+lt sd++++g +++ +++a+e+       +++++  ++l+ +d+++  W++++i+r++++r++l++GW+ Fv++++L +gD ++F   
  ORGLA01G0363100.1 131 FCKTLTASDTSTHGGFSVLRRHADEClppldmtQSPPT--QELVAKDLHSMDWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL-- 218
                        99*****************************7555544..58************************************************.. PP

                        SSSEE..EEEEE-S CS
                 B3  86 grsefelvvkvfrk 99 
                        + +++el+v+v+r+
  ORGLA01G0363100.1 219 RGENGELRVGVRRA 232
                        449999*****996 PP
2Auxin_resp113.61.9e-37257338183
         Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                        a+ha++tks+F+v+Y+Pr+s+seF+++++++++++k+++svGmRf+m+fe+e+++e+r++Gt++g ++ldp  Wp+S WrsLk
  ORGLA01G0363100.1 257 AWHAINTKSMFTVYYKPRTSPSEFIIPYDQYMESVKNNYSVGMRFRMRFEGEEAPEQRFTGTIIGSENLDP-VWPESSWRSLK 338
                        89*********************************************************************.9********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019368.63E-40123260IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.3E-39124246IPR015300DNA-binding pseudobarrel domain
CDDcd100175.38E-19129231No hitNo description
PROSITE profilePS5086311.265131233IPR003340B3 DNA binding domain
SMARTSM010191.5E-21131233IPR003340B3 DNA binding domain
PfamPF023628.1E-20131232IPR003340B3 DNA binding domain
PfamPF065075.9E-34257338IPR010525Auxin response factor
PfamPF023098.7E-7675730IPR033389AUX/IAA domain
SuperFamilySSF542774.56E-13690771No hitNo description
PROSITE profilePS5174526.238694787IPR000270PB1 domain
Gene3DG3DSA:3.10.20.2409.8E-4712767No hitNo description
PfamPF023092.6E-8736779IPR033389AUX/IAA 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: 810 aa     Download sequence    Send to blast
MPPAAMAPPP PPQGSSTGDP LYDELWHACA GPLVTVPRVG DLVFYFPQGH IEQVGVEASM  60
NQVADSQMRL YDLPSKLLCR VLNVELKAEQ DTDEVYAQVM LMPEPEQNEM AVEKTTPTSG  120
PVQARPPVRS FCKTLTASDT STHGGFSVLR RHADECLPPL DMTQSPPTQE LVAKDLHSMD  180
WRFRHIFRGQ PRRHLLQSGW SVFVSSKRLV AGDAFIFLRG ENGELRVGVR RAMRQLSNVP  240
SSVISSQSMH LGVLATAWHA INTKSMFTVY YKPRTSPSEF IIPYDQYMES VKNNYSVGMR  300
FRMRFEGEEA PEQRFTGTII GSENLDPVWP ESSWRSLKVR WDEPSTIPRP DRVSPWKIEP  360
ASSPPVNPLP LSRVKRPRPN APPASPESPI LTKEAATKVD TDPSQAQRSQ NSTVLQGQEQ  420
MTLRSNLTES NDSDVTAHKP MMWSPSPNAA KAHPLTFQQR PPMDNWMQLG RRETDFKDVR  480
SGSQSFGDSP GFFMQNFDEA PNRLTSFKNQ FQDQGSARHF SDPYYYVSPQ PSLTVESSTQ  540
MHTDSKELHF WNGQSSVYGN SRDQPQNFRF EQNSSSWLNQ SFARPEQPRV IRPHASIAPV  600
ELEKTEGSGF KIFGFKVDTT NAPNNHLSSP MAATHEPMLQ TPSSLNQLQP VQTDCIPEVS  660
VSTAGTATEN EKSGQQAQQS SKDVQSKTQV ASTRSCTKVH KQGVALGRSV DLSKFSNYDE  720
LKAELDKMFE FDGELVSSNK NWQIVYTDNE GDMMLVGDDP WEEFCSIVRK IYIYTKEEVQ  780
KMNSKSNAPR KDDSSENEKG HLPMPNKSDN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1671436312357Auxin response factor 1
4ldw_A1e-1671436312357Auxin response factor 1
4ldw_B1e-1671436312357Auxin response factor 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1374378KRPRP
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
Cis-element ? help Back to Top
SourceLink
PlantRegMapORGLA01G0363100.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
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
TrEMBLI1NUU10.0I1NUU1_ORYGL; Auxin response factor
STRINGORGLA01G0363100.10.0(Oryza glaberrima)
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]