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 OB04G36140.1
Organism
Oryza brachyantha
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: 829aa    MW: 92180.5 Da    PI: 6.3961
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OB04G36140.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B371.41.1e-22139240199
                   EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS
            B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 
                   f+k+lt sd++++g +++p++ ae+        ++++++  +l+ +d +  +W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F   ++++ 
  OB04G36140.1 139 FCKTLTASDTSTHGGFSVPRRAAERVfppldftQQPPAQ--ELIARDIHDIEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI--WNEKN 231
                   99***********************9*****86555544..8************************************************..88999 PP

                   ..EEEEE-S CS
            B3  91 elvvkvfrk 99 
                   +l+++++r+
  OB04G36140.1 232 QLLLGIRRA 240
                   99****997 PP
2Auxin_resp112.63.8e-37265348183
    Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                   aahaa+t+s F+++YnPras+seFv++++k+ ka+  +++svGmRf+m fete+ss rr++Gt++ vsd+dpvrWp S Wrs+k
  OB04G36140.1 265 AAHAAATNSRFTIFYNPRASPSEFVIPLSKYIKAVFhTRISVGMRFRMLFETEESSVRRYMGTITEVSDADPVRWPSSYWRSVK 348
                   79*******************************986599******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019367.98E-48124268IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.7E-41131254IPR015300DNA-binding pseudobarrel domain
CDDcd100175.49E-21138239No hitNo description
PROSITE profilePS5086312.224139241IPR003340B3 DNA binding domain
PfamPF023627.7E-21139240IPR003340B3 DNA binding domain
SMARTSM010191.4E-23139241IPR003340B3 DNA binding domain
PfamPF065071.6E-32265348IPR010525Auxin response factor
PfamPF023091.6E-7723814IPR033389AUX/IAA domain
SuperFamilySSF542771.31E-7724805No hitNo description
PROSITE profilePS5174524.037730814IPR000270PB1 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:0009908Biological Processflower development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 829 aa     Download sequence    Send to blast
MSSSSAASIG PPRPPPPPAP PEEGGWLEKK CLNSELWHAC AGPLVCLPTV GTRVVYFPQG  60
HSEQVAASTN KEVEGHIPNY PNLPAQLICQ LHDVTMHADV ETDEVYAQMT LQPLNPQEQN  120
DAYLPAEMGI MSKQPTNYFC KTLTASDTST HGGFSVPRRA AERVFPPLDF TQQPPAQELI  180
ARDIHDIEWK FRHIFRGQPK RHLLTTGWSV FVSAKRLVAG DSVLFIWNEK NQLLLGIRRA  240
SRPQTVMPSS VLSSDSMHIG LLAAAAHAAA TNSRFTIFYN PRASPSEFVI PLSKYIKAVF  300
HTRISVGMRF RMLFETEESS VRRYMGTITE VSDADPVRWP SSYWRSVKVG WDESTAGERP  360
PRVSLWEIEP LTTFPMYPSL FPLRVKHPWY SGVASLHDDS NALMWLRGVA GEGGFQSLNF  420
QSPGIGSWGQ QRLHPSLLST DHDQYQAVVA AAAAASQSGG YLKQQFLHLQ QPMQPPQEHC  480
NLNPLLQQQI LQQASQQQII SPEAQNIQTM LSPSSMQQQL QQLQQMQQVQ NDQKQKIQPE  540
QSYQVPSSAV LPSPTSIPSH LREKFGFSDP NANSSSFIPS SSSDNMLDSS FLQGGSKAVD  600
LSRFNQPVAS EQQQQQQQQQ QQQQAWKQKF MGSQSVSFGG SVLHNSPTSK DGSVENKIGR  660
DVQNQSLFSP QVDSSSLLYN MVPNLTSNVA DGSLSTIPSG STYLQNAMYG CLDDSSGLLQ  720
NTGENDPTTR TFVKVYKSGS VGRSLDITRF SNYAELREEL GQMFGIKGQL DDPDRSGWQL  780
VFVDRENDVL LLGDDPWESF VNSVWYIKIL SPEDVHKMGK QGNDPRYLS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1612836947388Auxin response factor 5
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).
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00033PBMTransfer from AT5G37020Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapOB04G36140.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0714550.0AK071455.1 Oryza sativa Japonica Group cDNA clone:J023093B04, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015691612.10.0PREDICTED: auxin response factor 12, partial
SwissprotQ0J9510.0ARFL_ORYSJ; Auxin response factor 12
TrEMBLJ3M2I90.0J3M2I9_ORYBR; Auxin response factor
STRINGOB04G36140.10.0(Oryza brachyantha)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP58503039
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G37020.20.0auxin response factor 8
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. Qi Y, et al.
    OsARF12, a transcription activator on auxin response gene, regulates root elongation and affects iron accumulation in rice (Oryza sativa).
    New Phytol., 2012. 193(1): p. 109-20
    [PMID:21973088]
  3. Shen WJ,Ruan XL,Li XS,Zhao Q,Li HP
    RNA silencing suppressor Pns11 of rice gall dwarf virus induces virus-like symptoms in transgenic rice.
    Arch. Virol., 2012. 157(8): p. 1531-9
    [PMID:22592958]
  4. Wang S, et al.
    Auxin response factor (OsARF12), a novel regulator for phosphate homeostasis in rice (Oryza sativa).
    New Phytol., 2014. 201(1): p. 91-103
    [PMID:24111723]
  5. Fan J, et al.
    Infection of Ustilaginoidea virens intercepts rice seed formation but activates grain-filling-related genes.
    J Integr Plant Biol, 2015. 57(6): p. 577-90
    [PMID:25319482]