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 OMERI04G24630.6
Organism
Oryza meridionalis
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: 789aa    MW: 87448.1 Da    PI: 6.1507
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OMERI04G24630.6genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B371.51.1e-22135236199
                      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   ++
  OMERI04G24630.6 135 FCKTLTASDTSTHGGFSVPRRAAERVfppldftQQPPAQ--ELIARDIHDIEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI--WN 224
                      99***********************9*****86555544..8************************************************..88 PP

                      SEE..EEEEE-S CS
               B3  88 sefelvvkvfrk 99 
                      ++ +l+++++r+
  OMERI04G24630.6 225 EKNQLLLGIRRA 236
                      99999****997 PP
2Auxin_resp69.11.4e-23261316155
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedss 55 
                      aahaa+t+s F+++YnPras+seFv++++k+ ka+  +++svGmRf+m fete+ss
  OMERI04G24630.6 261 AAHAAATNSRFTIFYNPRASPSEFVIPLSKYIKAVFhTRISVGMRFRMLFETEESS 316
                      79*******************************986599***************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019367.32E-48120264IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.5E-41127250IPR015300DNA-binding pseudobarrel domain
CDDcd100174.99E-21134235No hitNo description
SMARTSM010191.4E-23135237IPR003340B3 DNA binding domain
PfamPF023627.2E-21135236IPR003340B3 DNA binding domain
PROSITE profilePS5086312.224135237IPR003340B3 DNA binding domain
PfamPF065076.7E-19261316IPR010525Auxin response factor
PfamPF023091.5E-7683774IPR033389AUX/IAA domain
SuperFamilySSF542771.83E-7686765No hitNo description
PROSITE profilePS5174524.037690774IPR000270PB1 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: 789 aa     Download sequence    Send to blast
MSSSSAASIG PPQPPPPPAP PEEEKKCLNS ELWHACAGPL VCLPTVGTRV VYFPQGHSEQ  60
VAASTNKEVE GHIPNYPNLP AQLICQLHDV TMHADVETDE VYAQMTLQPL NPQEQNDAYL  120
PAEMGIMSKQ PTNYFCKTLT ASDTSTHGGF SVPRRAAERV FPPLDFTQQP PAQELIARDI  180
HDIEWKFRHI FRGQPKRHLL TTGWSVFVSA KRLVAGDSVL FIWNEKNQLL LGIRRASRPQ  240
TVMPSSVLSS DSMHIGLLAA AAHAAATNSR FTIFYNPRAS PSEFVIPLSK YIKAVFHTRI  300
SVGMRFRMLF ETEESSVGWD ESTAGERPPR VSLWEIEPLT TFPMYPSLFP LRVKHPWYSG  360
VASLHDDSNA LMWLRGVAGE GGFQSLNFQS PGIGSWGQQR LHPSLLSSDH DQYQAVVAAA  420
AASQSGGYLK QQFLHLQQPM QSPQEHCNLN PLLQQQILQQ ASQQQIINPD AQNIQTMLSP  480
SAIQQQLQQL QQMQQVQNDQ KQKIQPDQSY QVPTSAVLPS PTSLPSHLRE KFGFSDPNAN  540
SSSFITSSSS DNMLDSSFLQ GSSKAVDLSR FNQPVASEQQ QQQQAWKQKF MGSQSVSFGG  600
SVLHNSPTSK DGSVENKIGR DVQNQSLFSP QVDSSSLLYN MVPNLTSNVS DGNLSTIPSG  660
STYLQNAMYG CLDDSSGLLQ NTGENDPATR TFVKVYKSGS VGRSLDITRF SNYAELREEL  720
GQMFGIKGQL DDPDRSGWQL VFVDRENDVL LLGDDPWESF VNSVWYIKIL SPEDVHKMGK  780
QGNDPRYLS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1402433747388Auxin 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
GenBankAB0712980.0AB071298.1 Oryza sativa OsARF8 mRNA for auxin response factor 8, partial cds.
GenBankAK0671500.0AK067150.1 Oryza sativa Japonica Group cDNA clone:J013096O18, 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
TrEMBLA0A0E0DJY80.0A0A0E0DJY8_9ORYZ; Auxin response factor
TrEMBLA0A0E0DJZ10.0A0A0E0DJZ1_9ORYZ; Auxin response factor
STRINGORGLA04G0254900.10.0(Oryza glaberrima)
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]