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 Spipo4G0062300
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: 813aa    MW: 90425.7 Da    PI: 6.9049
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Spipo4G0062300genomeMIPS/IBISView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.94e-23119220199
                     EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 
                     f+k+lt sd++++g +++ +++a+e+       ++ + +++l+ +d++g +W++++i+r++++r++l++GW+ Fv++++L +gD ++F   + ++
  Spipo4G0062300 119 FCKTLTASDTSTHGGFSVLRRHADEClppldmAKQ-PPTQELVAKDLHGVEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--RGEN 210
                     99*****************************7333.34459************************************************..3489 PP

                     E..EEEEE-S CS
              B3  90 felvvkvfrk 99 
                      el+v+v+r+
  Spipo4G0062300 211 NELRVGVRRA 220
                     999****996 PP
2Auxin_resp113.42.1e-37245327183
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                     a+ha+st+++F+v+Y+Pr+s+seF++++++++++lk + s+G+Rfkm+fe+e+s+e+r++Gt++++ d+d+ rW++SkWr+Lk
  Spipo4G0062300 245 AWHAVSTGTMFTVFYKPRTSPSEFIISYDQYMESLKANHSIGTRFKMRFEGEESPEQRFTGTIISTGDVDQNRWSGSKWRCLK 327
                     89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.103.6E-41111234IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.35E-40112248IPR015300DNA-binding pseudobarrel domain
CDDcd100174.98E-21117219No hitNo description
PROSITE profilePS5086311.589119221IPR003340B3 DNA binding domain
PfamPF023623.9E-21119220IPR003340B3 DNA binding domain
SMARTSM010198.3E-23119221IPR003340B3 DNA binding domain
PfamPF065077.9E-35245327IPR010525Auxin response factor
PROSITE profilePS5174521.854691775IPR000270PB1 domain
SuperFamilySSF542773.19E-10695768No hitNo description
PfamPF023091.7E-6737777IPR033389AUX/IAA domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008285Biological Processnegative regulation of cell proliferation
GO:0009737Biological Processresponse to abscisic acid
GO:0009911Biological Processpositive regulation of flower development
GO:0010047Biological Processfruit dehiscence
GO:0010150Biological Processleaf senescence
GO:0010227Biological Processfloral organ abscission
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048481Biological Processplant ovule development
GO:0005634Cellular Componentnucleus
GO:0005515Molecular Functionprotein binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 813 aa     Download sequence    Send to blast
RAQGCGNYVE DALYTELWHA CAGPLVTVPR QDERVFYFPQ GHIEQVEAST NQVCDHKMPL  60
YDLPSKILCR VMNVELKAES DTDEVFAQVT LLPETNQDES GAEKESLPPA PPRPHVHSFC  120
KTLTASDTST HGGFSVLRRH ADECLPPLDM AKQPPTQELV AKDLHGVEWR FRHIFRGQPR  180
RHLLQSGWSV FVSSKRLVAG DAFIFLRGEN NELRVGVRRA MRQQPNVPTS VISSHSMHLG  240
ILATAWHAVS TGTMFTVFYK PRTSPSEFII SYDQYMESLK ANHSIGTRFK MRFEGEESPE  300
QRFTGTIIST GDVDQNRWSG SKWRCLKVRW DETSSVRRPE RVSPWEIEPA MASLPLNPHP  360
VPRNKRPRST LVPSSSDSSV LTREGQCKIA ADHPHAHEGP MVPRGQDNMA LQSNLSENND  420
PVAAQRRVAW SSLHDERNEG AENRRLGHGG WMSVMRHDPP CGDMVSGMQM PGELHAVRSL  480
AFNQSPGDGS PSKNHVKETE GKLNMLTVSW SALASTSSSF KESSSMLSVH ANEVACQNER  540
NMKFRGMPDF SSHQSPGSEW RCSNLPLSPR VADIQRSGAP KETVKPQTSQ NLKIFGINFN  600
ASAAACETGG SHTNPPHEPE PQAHAASRHQ TQALDSKHLC EQPGIESKQC MHARGSKLAE  660
TAGAMDEDKQ IQLSMQPPKY VQNKSQSSLT RSCRKVHKQG IALGRSVDLT KFHCYGELIA  720
ELDQMFDFGG ELMAPNKNWL VVYTDNEGDM MLVGDDPWLE FCGMVRKIFI YTREEVQKMN  780
PGTALARAEE PSASSDEKST LAEAEPAPDP FT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-173634912354Auxin response factor 1
4ldw_A1e-173634912354Auxin response factor 1
4ldw_B1e-173634912354Auxin 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). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Promotes flowering, stamen development, floral organ abscission and fruit dehiscence. Functions independently of ethylene and cytokinin response pathways. May act as a repressor of cell division and organ growth. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:15960614, ECO:0000269|PubMed:16176952, ECO:0000269|PubMed:16339187}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00574DAPTransfer from AT5G62000Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010926858.10.0auxin response factor 2A
RefseqXP_010926859.10.0auxin response factor 2A
SwissprotQ94JM30.0ARFB_ARATH; Auxin response factor 2
TrEMBLA0A1D1YIJ50.0A0A1D1YIJ5_9ARAE; Auxin response factor
STRINGXP_008776920.10.0(Phoenix dactylifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP117836111
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.30.0auxin response factor 2
Publications ? help Back to Top
  1. Chao WS,Doğramaci M,Foley ME,Horvath DP,Anderson JV
    Selection and validation of endogenous reference genes for qRT-PCR analysis in leafy spurge (Euphorbia esula).
    PLoS ONE, 2012. 7(8): p. e42839
    [PMID:22916167]
  2. Ozerova LV,Krasnikova MS,Troitsky AV,Solovyev AG,Morozov SY
    TAS3 Genes for small ta-siARF RNAs in plants belonging to subtribe Senecioninae: occurrence of prematurely terminated RNA precursors.
    Mol. Gen. Mikrobiol. Virusol., 2013.
    [PMID:24003511]
  3. Li C, et al.
    Ectopic expression of a maize hybrid down-regulated gene ZmARF25 decreases organ size by affecting cellular proliferation in Arabidopsis.
    PLoS ONE, 2014. 9(4): p. e94830
    [PMID:24756087]
  4. Lyons R, et al.
    Fusarium oxysporum triggers tissue-specific transcriptional reprogramming in Arabidopsis thaliana.
    PLoS ONE, 2015. 10(4): p. e0121902
    [PMID:25849296]
  5. Roodbarkelari F,Du F,Truernit E,Laux T
    ZLL/AGO10 maintains shoot meristem stem cells during Arabidopsis embryogenesis by down-regulating ARF2-mediated auxin response.
    BMC Biol., 2015. 13: p. 74
    [PMID:26358077]
  6. Meng LS,Wang ZB,Yao SQ,Liu A
    The ARF2-ANT-COR15A gene cascade regulates ABA-signaling-mediated resistance of large seeds to drought in Arabidopsis.
    J. Cell. Sci., 2015. 128(21): p. 3922-32
    [PMID:26395398]
  7. Zhao S,Zhang ML,Ma TL,Wang Y
    Phosphorylation of ARF2 Relieves Its Repression of Transcription of the K+ Transporter Gene HAK5 in Response to Low Potassium Stress.
    Plant Cell, 2016. 28(12): p. 3005-3019
    [PMID:27895227]
  8. Promchuea S,Zhu Y,Chen Z,Zhang J,Gong Z
    ARF2 coordinates with PLETHORAs and PINs to orchestrate ABA-mediated root meristem activity in Arabidopsis .
    J Integr Plant Biol, 2017. 59(1): p. 30-43
    [PMID:28074634]
  9. Wójcikowska B,Gaj MD
    Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis.
    Plant Cell Rep., 2017. 36(6): p. 843-858
    [PMID:28255787]
  10. Sanz-Fernández M, et al.
    Screening Arabidopsis mutants in genes useful for phytoremediation.
    J. Hazard. Mater., 2017. 335: p. 143-151
    [PMID:28441590]
  11. Zhang M,Hu X,Zhu M,Xu M,Wang L
    Transcription factors NF-YA2 and NF-YA10 regulate leaf growth via auxin signaling in Arabidopsis.
    Sci Rep, 2017. 7(1): p. 1395
    [PMID:28469131]
  12. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  13. Liu Z, et al.
    ARF2-ARF4 and ARF5 are Essential for Female and Male Gametophyte Development in Arabidopsis.
    Plant Cell Physiol., 2018. 59(1): p. 179-189
    [PMID:29145642]
  14. Sarkar Das S, et al.
    Expression dynamics of miRNAs and their targets in seed germination conditions reveals miRNA-ta-siRNA crosstalk as regulator of seed germination.
    Sci Rep, 2018. 8(1): p. 1233
    [PMID:29352229]