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 OBART01G31160.1
Organism
Oryza barthii
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: 786aa    MW: 86298.4 Da    PI: 8.9863
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OBART01G31160.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B378.38e-25191292199
                      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++       ++    s++l+ +d++g +W++++iyr++++r++lt+GW++Fv+ ++L +gD v+F   + 
  OBART01G31160.1 191 FCKTLTASDTSTHGGFSVPRRAAEDCfppldhkQLR--PSQELVAKDLHGAKWRFRHIYRGQPRRHLLTTGWSSFVNKKKLVSGDAVLFL--RG 280
                      99**************************99865444..4669************************************************..34 PP

                      SEE..EEEEE-S CS
               B3  88 sefelvvkvfrk 99 
                      +++el+++v+r+
  OBART01G31160.1 281 DDGELRLGVRRA 292
                      89999****997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.14E-47175330IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.106.8E-39186294IPR015300DNA-binding pseudobarrel domain
CDDcd100171.12E-22189291No hitNo description
PfamPF023627.8E-23191292IPR003340B3 DNA binding domain
PROSITE profilePS5086313.507191293IPR003340B3 DNA binding domain
SMARTSM010192.8E-24191293IPR003340B3 DNA binding domain
PfamPF065073.7E-31318397IPR010525Auxin 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: 786 aa     Download sequence    Send to blast
MASSASSSSS PSSRPPLMAL PSFYRPPWPS ERGGEQRATD CWAGSPAAGG GRARATAMGI  60
DLNNTASGGE EDAPAPAPVC RDLWHACAGP VVSLPRRGSA VVYLPQGHLS AAGAGGGIRG  120
EVAVALPPHV ACRVVDVELC ADAATDEVYA RLALRAEGEV FERNLHGGGI EREDDMEDGD  180
EERKSRMLHM FCKTLTASDT STHGGFSVPR RAAEDCFPPL DHKQLRPSQE LVAKDLHGAK  240
WRFRHIYRGQ PRRHLLTTGW SSFVNKKKLV SGDAVLFLRG DDGELRLGVR RATQLKNEAI  300
FKAFSSESSK MRTLSAVADS LKHGSVFHIC YNPRATASEY VVPYWKFVKS FNHPVCIGMR  360
FKFHFESEDV NERRSGMIAG VSEVDPIRWP GSKWRSLLVR WEDATDCNSQ NRVSPWEIEI  420
VGGSISVAHS LSASNGNGRP DSVETEKFPR VLQGQELMGS RTHRVTCSPQ SIDITKSKSF  480
DAWRFLTDTR SCMLGSSTSR LPVQYSGYTH QSVSFGESIG FPEVLQGQEI SQTVPPFQGM  540
LPDACSAKSR YELKNYVCTP ATMNGLSSAN EGYCLSLSTV PPSPPSSLML YQTGVPQLEL  600
ASKNNDKSGN DSQPALRQHK LLSETSWDQF KIGKASTPGN ATKPGNGGRE VDRTSSRLFG  660
FSLTEKIIPT DKDGEKEVSY ETDCQNPRML DLFGYNCSTP EVNARFARCT SGARRGKSLI  720
TSVGSSRYVN QIMHTAAYLF SKESWNGWYC RIVKGSAHRP KLKLYHPKPI VILSRVLKNH  780
FYGKSK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A1e-1007941919353Auxin response factor 1
4ldy_B1e-1007941919353Auxin 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 -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0723300.0AK072330.1 Oryza sativa Japonica Group cDNA clone:J023039P13, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015634503.10.0auxin response factor 3 isoform X2
SwissprotQ5JMM10.0ARFC_ORYSJ; Auxin response factor 3
TrEMBLA0A0D3EU340.0A0A0D3EU34_9ORYZ; Auxin response factor
STRINGOBART01G31160.10.0(Oryza barthii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP51132756
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-148ARF family protein
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. Song X, et al.
    Rice RNA-dependent RNA polymerase 6 acts in small RNA biogenesis and spikelet development.
    Plant J., 2012. 71(3): p. 378-89
    [PMID:22443269]