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 ORUFI01G28960.1
Organism
Oryza rufipogon
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: 729aa    MW: 80357.3 Da    PI: 7.2763
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORUFI01G28960.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.33e-23147248199
                      EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                      f+k+lt sd++++g +++p++ ae++      +++ +  ++l+ +d++g +W++++iyr++++r++lt+GW++F + ++L +gD v+F   + +
  ORUFI01G28960.1 147 FCKTLTASDTSTHGGFSVPRRAAEDCfppldySLQRPF-QELVAKDLHGTEWRFRHIYRGQPRRHLLTTGWSGFINKKKLVSGDAVLFL--RGE 237
                      99****************************99777666.49************************************************..449 PP

                      EE..EEEEE-S CS
               B3  89 efelvvkvfrk 99 
                      ++el+++v+r+
  ORUFI01G28960.1 238 DGELRLGVRRA 248
                      999*****996 PP
2Auxin_resp108.38.4e-36273353182
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                      +aha++ ks+F+++YnPr s+seF+++++k+++++++++svGmRfk+++e+ed+serr +G+++g +++dp  W++SkW++L
  ORUFI01G28960.1 273 VAHAVAVKSIFHIYYNPRLSQSEFIIPYWKFMRSFSQPFSVGMRFKLRYESEDASERRRTGIIIGSREADP-MWHGSKWKCL 353
                      799********************************************************************.9********9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.1E-38139252IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.57E-42144284IPR015300DNA-binding pseudobarrel domain
CDDcd100174.04E-21145247No hitNo description
PROSITE profilePS5086312.901147249IPR003340B3 DNA binding domain
PfamPF023622.5E-21147248IPR003340B3 DNA binding domain
SMARTSM010192.5E-22147249IPR003340B3 DNA binding domain
PfamPF065071.8E-29273353IPR010525Auxin response factor
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:0010050Biological Processvegetative phase change
GO:0010158Biological Processabaxial cell fate specification
GO:0010582Biological Processfloral meristem determinacy
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 729 aa     Download sequence    Send to blast
MVGIDLNTVE EEEDEEEGGA TGTVTAPAEA RAGGAVCLEL WHACAGPVAP LPRKGSAVVY  60
LPQGHLEHLG AAPGSGPGAA VPPHVFCRVV DVSLHADAAT DEVYAQVSLV ADNEEVERRM  120
REGEDGAACD GEGEDAVKRP ARIPHMFCKT LTASDTSTHG GFSVPRRAAE DCFPPLDYSL  180
QRPFQELVAK DLHGTEWRFR HIYRGQPRRH LLTTGWSGFI NKKKLVSGDA VLFLRGEDGE  240
LRLGVRRAAQ LKNASPFPAL HNQISNTSSL SEVAHAVAVK SIFHIYYNPR LSQSEFIIPY  300
WKFMRSFSQP FSVGMRFKLR YESEDASERR RTGIIIGSRE ADPMWHGSKW KCLVVKWDDD  360
VECRRPNGVS PWEIELSGSV SGSHLSTPHS KRLKSCFPQV NPDIVLPNGS VSSDFAESAR  420
FHKVLQGQEL LGLKTRDGTV NTASQATEAR NFQYTDERSC SINMSNNILG VPRLGVKTPS  480
GNPGFSYHCS GFGESQRFQE VLQGQEVFRP YRGGTLSDAC IRGSGFRQPD GNHAPGAAFK  540
WLAPQGCDHH GITTSVLPQA SSPSSVLMFP QTSSKMPGLE YIYGCLDRNE NSRHFKIGPT  600
QDMTRTDQTL RLWPHLISGK VLDECTRNEK LHSPVSGAEH ESNNKCLNTN GCKIFGISLT  660
EKAQAGDEVD CGNASYHSRL QSLKPQMPKS LGSSCATHFH RLCYRIQDDD RGNADDTRRM  720
LVKFVVMHF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A1e-1123538318361Auxin response factor 1
4ldy_B1e-1123538318361Auxin response factor 1
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
MP00021PBMTransfer from AT2G33860Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin under dark condition. {ECO:0000269|PubMed:17408882}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0712910.0AB071291.1 Oryza sativa OsETTIN2 mRNA for Arabidopsis ETTIN-like protein 2, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015647511.10.0auxin response factor 2 isoform X2
SwissprotQ0JKI90.0ARFB_ORYSJ; Auxin response factor 2
TrEMBLA0A0E0N0J10.0A0A0E0N0J1_ORYRU; Auxin response factor
STRINGORUFI01G28960.10.0(Oryza rufipogon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP25373580
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-163ARF family protein
Publications ? help Back to Top
  1. Khanday I,Yadav SR,Vijayraghavan U
    Rice LHS1/OsMADS1 controls floret meristem specification by coordinated regulation of transcription factors and hormone signaling pathways.
    Plant Physiol., 2013. 161(4): p. 1970-83
    [PMID:23449645]