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 ORGLA01G0213000.1
Organism
Oryza glaberrima
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: 722aa    MW: 79054.9 Da    PI: 7.1733
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA01G0213000.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.37e-24147248199
                        EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                 B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                        f+k+lt sd++++g +++p++ ae++      +++ + s++l+ +d++g +W++++iyr++++r++lt+GW++F + ++L +gD v+F   +
  ORGLA01G0213000.1 147 FCKTLTASDTSTHGGFSVPRRAAEDCfppldySLQRP-SQELVAKDLHGTEWRFRHIYRGQPRRHLLTTGWSGFINKKKLVSGDAVLFL--R 235
                        99****************************9966654.569************************************************..4 PP

                        SSEE..EEEEE-S CS
                 B3  87 rsefelvvkvfrk 99 
                         +++el+++v+r+
  ORGLA01G0213000.1 236 GEDGELRLGVRRA 248
                        49999*****996 PP
2Auxin_resp98.31.1e-32273357182
         Auxin_resp   1 aahaastksvFevvYnP....rastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                        +aha++ ks+F+++YnP    r s+seF+++++k+++++++++svGmRfk+++e+ed+serr +G+++g +++dp  W++SkW++L
  ORGLA01G0213000.1 273 VAHAVAVKSIFHIYYNPscthRLSQSEFIIPYWKFMRSFSQPFSVGMRFKLRYESEDASERRRTGIIIGSREADP-MWHGSKWKCL 357
                        799**************66666899**************************************************.9********9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.7E-39139252IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.35E-43144284IPR015300DNA-binding pseudobarrel domain
CDDcd100175.85E-22145247No hitNo description
PfamPF023627.3E-22147248IPR003340B3 DNA binding domain
PROSITE profilePS5086313.281147249IPR003340B3 DNA binding domain
SMARTSM010191.4E-22147249IPR003340B3 DNA binding domain
PfamPF065072.3E-26273357IPR010525Auxin 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: 722 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
QRPSQELVAK DLHGTEWRFR HIYRGQPRRH LLTTGWSGFI NKKKLVSGDA VLFLRGEDGE  240
LRLGVRRAAQ LKNASPFPAL HNQISNTSSL SEVAHAVAVK SIFHIYYNPS CTHRLSQSEF  300
IIPYWKFMRS FSQPFSVGMR FKLRYESEDA SERRRTGIII GSREADPMWH GSKWKCLVVK  360
WDDDVECRRP NGVSPWEIEL SGSVSGSHLS TPHSKRLKSC FPQVNPDIVL PNGSVSSDFA  420
ESARFHKVLQ GQELLGLKTR DGTVNTASQA TEARNFQYTD ERSCSINMSN NILGVPRLGV  480
KTPSGNPGFS YHCSGFGESQ RFQEVLQGQE VFRPYRGGTL SDACIRGSGF RQPDGNHAPG  540
AAFKWLAPQG CDHHGITTSV LPQASSPSSV LMFPQTSSKM PGLEYIYGCL DRNENSRHFK  600
IGPTQDMTRT DQTLRLWPHL ISGKMLDECT RNEKLHSPVG GAEHESNNKC LNTNGCKIFG  660
ISLTEKAQAG DEVDCGNASY HSRLQSLKPQ MPKSLGSSCA TVHEQRPVVG RVVDISAVNT  720
MI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A1e-1103538718361Auxin response factor 1
4ldy_B1e-1103538718361Auxin 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
Cis-element ? help Back to Top
SourceLink
PlantRegMapORGLA01G0213000.1
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_015647434.10.0auxin response factor 2 isoform X1
SwissprotQ0JKI90.0ARFB_ORYSJ; Auxin response factor 2
TrEMBLI1NQJ00.0I1NQJ0_ORYGL; Auxin response factor
STRINGORGLA01G0213000.10.0(Oryza glaberrima)
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-162ARF 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]