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 BGIOSGA005099-PA
Common NameOsI_05027
Organism
Oryza sativa subsp. indica
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; Oryza sativa
Family ARF
Protein Properties Length: 803aa    MW: 90387.2 Da    PI: 6.4775
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
BGIOSGA005099-PAgenomeRISView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B369.64.1e-22124225199
                       EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                       f+k+lt sd++++g +++ +++a+e+       +++++  ++l+ +d+++  W++++i+r++++r++l++GW+ Fv++++L +gD ++F   +
  BGIOSGA005099-PA 124 FCKTLTASDTSTHGGFSVLRRHADEClppldmtQSPPT--QELVAKDLHSMDWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--R 212
                       99*****************************7555544..58************************************************..4 PP

                       SSEE..EEEEE-S CS
                B3  87 rsefelvvkvfrk 99 
                        +++el+v+v+r+
  BGIOSGA005099-PA 213 GENGELRVGVRRA 225
                       49999*****996 PP
2Auxin_resp113.61.9e-37250331183
        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
  BGIOSGA005099-PA 250 AWHAINTKSMFTVYYKPRTSPSEFIIPYDQYMESVKNNYSVGMRFRMRFEGEEAPEQRFTGTIIGSENLDP-VWPESSWRSLK 331
                       89*********************************************************************.9********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019368.5E-40116253IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.3E-39117239IPR015300DNA-binding pseudobarrel domain
CDDcd100175.30E-19122224No hitNo description
SMARTSM010191.5E-21124226IPR003340B3 DNA binding domain
PROSITE profilePS5086311.265124226IPR003340B3 DNA binding domain
PfamPF023628.0E-20124225IPR003340B3 DNA binding domain
PfamPF065075.8E-34250331IPR010525Auxin response factor
PfamPF023098.4E-7668723IPR033389AUX/IAA domain
SuperFamilySSF542774.46E-13683764No hitNo description
PROSITE profilePS5174526.238687780IPR000270PB1 domain
Gene3DG3DSA:3.10.20.2409.7E-4705760No hitNo description
PfamPF023092.6E-8729772IPR033389AUX/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: 803 aa     Download sequence    Send to blast
MAPPPPPQGS STGDPLYDEL WHACAGPLVT VPRVGDLVFY FPQGHIEQVE ASMNQVADSQ  60
MRLYDLPSKL LCRVLNVELK AEQDTDEVYA QVMLMPEPEQ NEMAVEKTTP TSGPVQARPP  120
VRSFCKTLTA SDTSTHGGFS VLRRHADECL PPLDMTQSPP TQELVAKDLH SMDWRFRHIF  180
RGQPRRHLLQ SGWSVFVSSK RLVAGDAFIF LRGENGELRV GVRRAMRQLS NVPSSVISSQ  240
SMHLGVLATA WHAINTKSMF TVYYKPRTSP SEFIIPYDQY MESVKNNYSV GMRFRMRFEG  300
EEAPEQRFTG TIIGSENLDP VWPESSWRSL KVRWDEPSTI PRPDRVSPWK IEPASSPPVN  360
PLPLSRVKRP RPNAPPASPE SPILTKEAAT KVDTDPAQAQ RSQNSTVLQG QEQMTLRSNL  420
TESNDSDVTA HKPMMWSPSP NAAKAHPLTF QQRPPMDNWM QLGRRETDFK DVRSGSQSFG  480
DSPGFFMQNF DEAPNRLTSF KNQFQDQGSA RHFSDPYYYV SPQPSLTVES STQMHTDSKE  540
LHFWNGQSTV YGNSRDRPQN FRFEQNSSSW LNQSFARPEQ PRVIRPHASI APVELEKTEG  600
SGFKIFGFKV DTTNAPNNHL SSPMAATHEP MLQTPSSLNQ LQPVQTDCIP EVSVSTAGTA  660
TENEKSGQQA QQSSKDVQSK TQVASTRSCT KVHKQGVALG RSVDLSKFSN YDELKAELDK  720
MFEFDGELVS SNKNWQIVYT DNEGDMMLVG DDPWEEFCSI VRKIYIYTKE EVQKMNSKSN  780
APRKDDSSEN EKGHLPMPNK SDN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-169935612357Auxin response factor 1
4ldw_A1e-169935612357Auxin response factor 1
4ldw_B1e-169935612357Auxin response factor 1
4ldx_A1e-169935612357Auxin response factor 1
4ldx_B1e-169935612357Auxin response factor 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1367371KRPRP
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.261440.0callus| flower| leaf| panicle| root| seed| stem| vegetative meristem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329823320.0
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, culms, leaves and young panicles. {ECO:0000269|PubMed:17408882}.
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
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
TrEMBLB8A8I40.0B8A8I4_ORYSI; Auxin response factor
STRINGOS01T0927600-010.0(Oryza sativa)
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]