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 Lus10043200
Organism
Linum usitatissimum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Linaceae; Linum
Family ARF
Protein Properties Length: 851aa    MW: 94401.5 Da    PI: 6.8782
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lus10043200genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B370.22.7e-22161262199
                  EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS
           B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 
                  f+k+lt sd++++g +++ +++a+e+      + + + +++l+ +d+++ +W++++i+r++++r++l++GW+ Fv++++L +gD ++F   + +++el
  Lus10043200 161 FCKTLTASDTSTHGGFSVLRRHADEClppldmSRQ-PPTQELVAKDLHSIEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--RGENGEL 255
                  99*****************************7333.34459************************************************..449999* PP

                  EEEEE-S CS
           B3  93 vvkvfrk 99 
                  +v+v+r+
  Lus10043200 256 RVGVRRA 262
                  ****996 PP
2Auxin_resp118.84.3e-39287369183
   Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                  a+ha+st++ F+v+Y+Pr+s+s+F+v++++++++ k+++++GmRfkm+fe+e+++e+r++Gt+vg++d+dp rW++SkWr+Lk
  Lus10043200 287 AWHAISTGTLFTVYYKPRTSPSQFIVPYDQYMESAKSNYTIGMRFKMRFEGEEAPEQRFTGTIVGIEDADPKRWQESKWRCLK 369
                  89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.14E-40157290IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.106.1E-40158276IPR015300DNA-binding pseudobarrel domain
CDDcd100173.84E-20159261No hitNo description
PfamPF023624.1E-20161262IPR003340B3 DNA binding domain
PROSITE profilePS5086311.237161263IPR003340B3 DNA binding domain
SMARTSM010192.4E-22161263IPR003340B3 DNA binding domain
PfamPF065072.1E-36287369IPR010525Auxin response factor
SuperFamilySSF542773.53E-12723802No hitNo description
PROSITE profilePS5174525.765725809IPR000270PB1 domain
PfamPF023091.1E-7769810IPR033389AUX/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: 851 aa     Download sequence    Send to blast
MASSEISMKG NSGNVRGESF SSSYSEQTEG RKAIEGHKGA PLAHPGAPID AEAALYKELW  60
HACAGPLVTV PRKGELVYYF PQGHIEQVEA STNQGADQQM PLYNLPSKIL CRVLNVELKA  120
EPDTDEVFAQ VTLLPEANQD ENAVKKEPPL PPPPRFHVHS FCKTLTASDT STHGGFSVLR  180
RHADECLPPL DMSRQPPTQE LVAKDLHSIE WRFRHIFRGQ PRRHLLQSGW SVFVSSKRLV  240
AGDAFIFLRG ENGELRVGVR RAMRQQGNVP SSVISSHSMH LGVLATAWHA ISTGTLFTVY  300
YKPRTSPSQF IVPYDQYMES AKSNYTIGMR FKMRFEGEEA PEQRFTGTIV GIEDADPKRW  360
QESKWRCLKV RWDENSSIPR PERVSPWQTE PALAPPALNP LPMARPKRPR TSIIPSSPDS  420
SVLTREVLSK VTADPPPAGG YSRVLQGQEL STLRGNFTES TESDTAEKSV RWPLSVDDEK  480
IDVVSADRRT GHESWTPTVR HEPTYTDLLS GFAGNTDSSS HGYSSPFADR GSFHGNSMRK  540
RGVDQDGKFS LLGNPWSLMP AGLSLKVSDS NVKAPWQSGD LGTPVRANSR YSAFSEYAKA  600
DQSHVNWLMP PPSQFDHHLQ TRDMMSKSIL APDRDAGKST DGNCKLFGIP LISNSKVADV  660
AASHKSTMND SVDHTNASSQ HHSREYDQLE QSKSSKMNNE SEHENRVEHS HVRDNHGKSH  720
CGSTRSCTKV HKQGIALGRS VDLSKFNNYE QLIAELDRLF EFGGELIDPK QNWMIVYTDD  780
EGDMMLVGDD PWQEFVGMVR KIFIYTREEV QKMNPGSLNS KGNNNCDGEG GEMKQSAVGA  840
CSLASASENC *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A0.05439118354Auxin response factor 1
4ldw_A0.05439118354Auxin response factor 1
4ldw_B0.05439118354Auxin response factor 1
4ldx_A0.05439118354Auxin response factor 1
4ldx_B0.05439118354Auxin response factor 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1405411PKRPRTS
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
Cis-element ? help Back to Top
SourceLink
PlantRegMapLus10043200
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_012090599.10.0auxin response factor 2
SwissprotQ94JM30.0ARFB_ARATH; Auxin response factor 2
TrEMBLA0A067JF520.0A0A067JF52_JATCU; Auxin response factor
STRINGLus100432000.0(Linum usitatissimum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF32813366
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]