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 OGLUM12G20370.1
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: 962aa    MW: 106996 Da    PI: 6.9471
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OGLUM12G20370.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.27.6e-24132233199
                      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   ++
  OGLUM12G20370.1 132 FCKTLTASDTSTHGGFSVPRRAAEKVfppldfsQQPPA--QELIARDLHDNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVIFI--WN 221
                      99*****************************8544444..48************************************************..77 PP

                      SEE..EEEEE-S CS
               B3  88 sefelvvkvfrk 99 
                      ++ +l+++++r+
  OGLUM12G20370.1 222 DNNQLLLGIRRA 233
                      77778***9997 PP
2Auxin_resp116.52.2e-38258341183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                      aahaa+t+s F+++YnPras+seFv++++k++ka++ ++vsvGmRf+m fete+ss rr++Gt++++sdld+vrWpnS Wrs+k
  OGLUM12G20370.1 258 AAHAAATNSRFTIFYNPRASPSEFVIPLAKYVKAVYhTRVSVGMRFRMLFETEESSVRRYMGTITSISDLDSVRWPNSYWRSVK 341
                      79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019367.85E-49117261IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.8E-43123247IPR015300DNA-binding pseudobarrel domain
CDDcd100175.47E-22131232No hitNo description
PROSITE profilePS5086312.703132234IPR003340B3 DNA binding domain
SMARTSM010197.9E-25132234IPR003340B3 DNA binding domain
PfamPF023625.2E-22132233IPR003340B3 DNA binding domain
PfamPF065071.1E-33258341IPR010525Auxin response factor
SuperFamilySSF542771.57E-6757840No hitNo description
PfamPF023093.0E-7763852IPR033389AUX/IAA domain
PROSITE profilePS5174522.727766850IPR000270PB1 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: 962 aa     Download sequence    Send to blast
MKLSPPASAD MPQALPENDG EQRCLNSELW HACAGPLVSL PVVRSRVVYF PQGHSEQVAA  60
STNKEVDAQI PNYPNLPPQL ICQLHNVTMH ADAETDEVYA QMTLQPLSPE EQKEPFLPME  120
LGAASKQPTN YFCKTLTASD TSTHGGFSVP RRAAEKVFPP LDFSQQPPAQ ELIARDLHDN  180
EWKFRHIFRG QPKRHLLTTG WSVFVSAKRL VAGDSVIFIW NDNNQLLLGI RRANRQQTVM  240
PSSVLSSDSM HIGLLAAAAH AAATNSRFTI FYNPRASPSE FVIPLAKYVK AVYHTRVSVG  300
MRFRMLFETE ESSVRRYMGT ITSISDLDSV RWPNSYWRSV KVGWDESTTG DKQPRVSLWE  360
IEPLTTFPMY PSAFPLRLKR PWASGLPMHG MFNGGGNDDF ARYSSLMWLR DGNRGTQSLN  420
FQGHGVSPWL QPRIDSPLLG LKPDTYQQMA AAALEEIRYG DPSKQHPATL QYQQTHNLNS  480
GLNSLFASHV LGQVQFQPQQ SPLQVVQQGH CQNTGDSGFL QGQLPRLQLH NTQQLLKEQE  540
LQQQQRQHVL QEQSNQEMQQ QLPSSDHRVA DVASESGSAP QAQSSLLSGS SFYNQNLLEG  600
NSDPPLHLHN NFHNFSNQEA SNLLSLPRSS QLMASDGWPS KRLALESAVH PEAPSMHPKI  660
EKVNHQGISH FPGAFPPQSA RGCSIVQDCR ADAENRLLSS SFELQDGMTS IITDANRETD  720
TMAIPLLRYS GADLTTENTL ATSNCLGESG TFNPLNNISV NPSQGATFVK VYKSGSLGRS  780
LDISRFSSYC ELRSELERLF GLEGQLEDPV RSGWQLVFVD RENDILLVGD DPWQEFANSV  840
WCIKILSPQE VQQLVRGGDG LLSSPGARMQ QSNACDDYSA SHNMQNIAGN IASRNSQLQQ  900
RRRRDGTAPV SRMRSTWRAS RAACRLRRAS TLACFPSALW LNADSLLLSF CFALAFICSA  960
CT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1611336238388Auxin 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
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1217030.0AK121703.1 Oryza sativa Japonica Group cDNA clone:J033074F07, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015619766.10.0auxin response factor 25 isoform X1
SwissprotQ2QM840.0ARFY_ORYSJ; Auxin response factor 25
TrEMBLA0A0E0BV610.0A0A0E0BV61_9ORYZ; Auxin response factor
STRINGOGLUM12G20370.10.0(Oryza glumipatula)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP127122934
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. Gao S, et al.
    CYTOKININ OXIDASE/DEHYDROGENASE4 Integrates Cytokinin and Auxin Signaling to Control Rice Crown Root Formation.
    Plant Physiol., 2014. 165(3): p. 1035-1046
    [PMID:24808099]