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 Spipo26G0023100
Organism
Spirodela polyrhiza
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Alismatales; Araceae; Lemnoideae; Spirodela
Family ARF
Protein Properties Length: 749aa    MW: 80022.7 Da    PI: 7.1948
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Spipo26G0023100genomeMIPS/IBISView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.81.1e-24159260199
                      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++      + +++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv+ ++L +gD v+F   + +
  Spipo26G0023100 159 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyK-QQRPSQELIAKDLHGTEWRFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFL--RGD 249
                      99****************************963.3445679************************************************..348 PP

                      EE..EEEEE-S CS
               B3  89 efelvvkvfrk 99 
                      ++el+++++r+
  Spipo26G0023100 250 DGELRLGIRRA 260
                      9999****996 PP
2Auxin_resp103.91.9e-34285366182
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                      a++a+++ksvF+v+YnPr+ +s+F+v++ +++k+lk+++s+GmRfk ++e+ed+  +r +G+++gv d dp+rWp+SkW++L
  Spipo26G0023100 285 AVNAITSKSVFHVYYNPRTRPSDFIVPYGRFLKSLKNSFSIGMRFKTHVEGEDAGDKRHTGLITGVGDRDPSRWPGSKWKCL 366
                      789******************************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.22E-42154263IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.7E-41155272IPR015300DNA-binding pseudobarrel domain
CDDcd100173.18E-23157259No hitNo description
SMARTSM010193.1E-23159261IPR003340B3 DNA binding domain
PROSITE profilePS5086313.408159261IPR003340B3 DNA binding domain
PfamPF023621.1E-22159260IPR003340B3 DNA binding domain
PfamPF065071.4E-30285366IPR010525Auxin response factor
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
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: 749 aa     Download sequence    Send to blast
MTGIDLNTVE EDDGVAQDQA VRRRAPHSPS SLSPSVSLEL WHACAGPLIS LPRKGSVVVY  60
LPQGHLEQLA GDCAGGEDPA NGVAGGEPLR CDVPPHVFCR VVDINLHAET ATDEVYAQLS  120
LLPDSEELEK QQPEAELEGE LDPDELVGVA KTSVTRHMFC KTLTASDTST HGGFSVPRRA  180
AEDCFPPLDY KQQRPSQELI AKDLHGTEWR FRHIYRGQPR RHLLTTGWSA FVNKKKLVSG  240
DAVLFLRGDD GELRLGIRRA APLKGGVSCS VARGQSPNPG AFSCAVNAIT SKSVFHVYYN  300
PRTRPSDFIV PYGRFLKSLK NSFSIGMRFK THVEGEDAGD KRHTGLITGV GDRDPSRWPG  360
SKWKCLLVRW DDDVETGRQN RVSPWEIEPA GSVPGSNCLS TPTSKRAKIG LSSANPNYPV  420
PGGNGCPDFG ESARFQKVLQ GQEVLGFLSP FDGSGAANAQ FSEMRRCIPD GGRHMMAAAA  480
RSTVRAPLEK PDAPCHGIGF GEPSRFHKVL QGQEIFPSKQ PFPGALGGRQ AEDNGGAGGF  540
SSSPFRRVVF APDDGRISGR WPPQLRGYNP LVQQQSPSPA QVSSPSSVLM FQQAATTAQL  600
TGGVSSELGA GGGDSRYPPR CVGNPLGAAA SFSDFLGMHV ELGRRAPTPA SDSDPREEQE  660
SPSSGGSSSC RLFGFSLTET YQGRSMVIDG GGPPSPPQSS NEVTAESSSP AVPQVAAKSM  720
ARSCTKVSAL YDLCAAPFSR SPCFFTLL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldx_A1e-1193239815363Auxin response factor 1
4ldx_B1e-1193239815363Auxin 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
GenBankAC2545440.0AC254544.1 Spirodela polyrhiza clone GNAS837-G05, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_008798267.10.0auxin response factor 15-like isoform X2
RefseqXP_008798270.10.0auxin response factor 15-like isoform X4
SwissprotQ8S9850.0ARFO_ORYSJ; Auxin response factor 15
TrEMBLA0A1D1XHD60.0A0A1D1XHD6_9ARAE; Auxin response factor
STRINGXP_008798266.10.0(Phoenix dactylifera)
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-178ARF 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. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]
  3. 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]