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 OGLUM04G29070.2
Organism
Oryza glumaepatula
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: 839aa    MW: 93254.6 Da    PI: 5.9778
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OGLUM04G29070.2genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B371.41.2e-22157258199
                      EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                      f+k+lt sd++++g +++p++ ae+        ++++++  +l+ +d +  +W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F   ++
  OGLUM04G29070.2 157 FCKTLTASDTSTHGGFSVPRRAAERVfppldftQQPPAQ--ELIARDIHDIEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI--WN 246
                      99***********************9*****86555544..8************************************************..88 PP

                      SEE..EEEEE-S CS
               B3  88 sefelvvkvfrk 99 
                      ++ +l+++++r+
  OGLUM04G29070.2 247 EKNQLLLGIRRA 258
                      99999****997 PP
2Auxin_resp112.63.8e-37283366183
       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
  OGLUM04G29070.2 283 AAHAAATNSRFTIFYNPRASPSEFVIPLSKYIKAVFhTRISVGMRFRMLFETEESSVRRYMGTITEVSDADPVRWPSSYWRSVK 366
                      79*******************************986599******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019368.11E-48142286IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.7E-41149272IPR015300DNA-binding pseudobarrel domain
CDDcd100175.62E-21156257No hitNo description
PfamPF023627.9E-21157258IPR003340B3 DNA binding domain
PROSITE profilePS5086312.224157259IPR003340B3 DNA binding domain
SMARTSM010191.4E-23157259IPR003340B3 DNA binding domain
PfamPF065071.6E-32283366IPR010525Auxin response factor
PfamPF023091.6E-7733824IPR033389AUX/IAA domain
SuperFamilySSF542771.77E-7735815No hitNo description
PROSITE profilePS5174524.037740824IPR000270PB1 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: 839 aa     Download sequence    Send to blast
MVAISELGLR VCASLVWSEE EEMSSSSAAS IGPPQPPPPP APPEEEKKCL NSELWHACAG  60
PLVCLPTVGT RVVYFPQGHS EQVAASTNKE VEGHIPNYPN LPAQLICQLH DVTMHADVET  120
DEVYAQMTLQ PLNPQEQNDA YLPAEMGIMS KQPTNYFCKT LTASDTSTHG GFSVPRRAAE  180
RVFPPLDFTQ QPPAQELIAR DIHDIEWKFR HIFRGQPKRH LLTTGWSVFV SAKRLVAGDS  240
VLFIWNEKNQ LLLGIRRASR PQTVMPSSVL SSDSMHIGLL AAAAHAAATN SRFTIFYNPR  300
ASPSEFVIPL SKYIKAVFHT RISVGMRFRM LFETEESSVR RYMGTITEVS DADPVRWPSS  360
YWRSVKVGWD ESTAGERPPR VSLWEIEPLT TFPMYPSLFP LRVKHPWYSG VASLHDDSNA  420
LMWLRGVAGE GGFQSLNFQS PGIGSWGQQR LHPSLLSSDH DQYQAVVAAA AASQSGGYLK  480
QQFLHLQQPM QSPQEHCNLN PLLQQQILQQ ASQQQIINPD AQNIQTMLSP SAIQQQLQQM  540
QQVQNDQKQK IQPDQSYQVP TSAVLPSPTS LPSHLREKFG FSDPNANSSS FITSSSSDNM  600
LDSSFLQGSS KAVDLSRFNQ PVASEQQQQQ QQQQAWKQKF MGSQSVSFGG SVLHNSPTSK  660
DGSVENKIGR DVQNQSLFSP QVDSSSLLYN MVPNLTSNVS DGNLSTIPSG STYLQNAMYG  720
CLDDSSGFLQ NTGENDPATR TFVKVYKSGS VGRSLDITRF SNYAELREEL GQMFGIKGQL  780
DDPDRSGWQL 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-1614638747388Auxin 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).
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
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_015636872.10.0auxin response factor 12 isoform X1
RefseqXP_015636874.10.0auxin response factor 12 isoform X3
SwissprotQ0J9510.0ARFL_ORYSJ; Auxin response factor 12
SwissprotQ258Y50.0ARFL_ORYSI; Auxin response factor 12
TrEMBLA0A0D9ZS950.0A0A0D9ZS95_9ORYZ; Auxin response factor
STRINGOGLUM04G29070.10.0(Oryza glumipatula)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.10.0auxin response factor 6
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]