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 Rsa1.0_03073.1_g00005.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family ARF
Protein Properties Length: 574aa    MW: 62386.1 Da    PI: 5.806
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_03073.1_g00005.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B370.12.9e-22117218199
                              EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-E CS
                       B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDf 79 
                              f kvlt sd+++ g +++p+ +a++          ++ +  +l ++d +g +W++++iyr++++r++lt+GW++Fv+ ++L  gD+
  Rsa1.0_03073.1_g00005.1 117 FAKVLTASDANNGGGFSVPRYCADSVfppldfqADPPVQ--KLFITDVHGVVWDFRHIYRGTPRRHLLTTGWSKFVNNKKLICGDS 200
                              89*********************999*****95444444..8******************************************** PP

                              EEEEE-SSSEE..EEEEE-S CS
                       B3  80 vvFkldgrsefelvvkvfrk 99 
                              vvF+  ++s  e++++v+r+
  Rsa1.0_03073.1_g00005.1 201 VVFM--RKSVHEMFIGVRRA 218
                              ****..44888899***997 PP
2Auxin_resp70.74.4e-24286352368
               Auxin_resp   3 haastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsd 68 
                               +as++ +FevvY+P a++s+Fvv++e+ve++++v +++G+R+kma+etedss++++ +G+v++  +
  Rsa1.0_03073.1_g00005.1 286 GKASQGLPFEVVYYPTAGWSDFVVRAEDVEASVSVYWAPGTRVKMAMETEDSSRITWfQGVVSASFQ 352
                              57899****************************************************8999886544 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.2E-33105224IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.22E-28112218IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086312.182117219IPR003340B3 DNA binding domain
CDDcd100171.57E-18117213No hitNo description
PfamPF023626.4E-20117218IPR003340B3 DNA binding domain
SMARTSM010191.3E-18117219IPR003340B3 DNA binding domain
PfamPF065071.1E-18287351IPR010525Auxin 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:0010208Biological Processpollen wall assembly
GO:0048830Biological Processadventitious root development
GO:0052543Biological Processcallose deposition in cell wall
GO:0005634Cellular Componentnucleus
GO:0000987Molecular Functioncore promoter proximal region sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 574 aa     Download sequence    Send to blast
MSPPSAVNHR EIDPKIWRAC AGASVQIPAL FSRVYYFPQG HVEHCCPSST PIPCVVSSIS  60
LLADPVTDEV FAHLSLHPVS HDQFLPPHPH PHPPSSRFGR FLEEEEESSG EEKVVTFAKV  120
LTASDANNGG GFSVPRYCAD SVFPPLDFQA DPPVQKLFIT DVHGVVWDFR HIYRGTPRRH  180
LLTTGWSKFV NNKKLICGDS VVFMRKSVHE MFIGVRRAPS SNKSGGGSYY GGGGGGGVTG  240
DEYFPGYNYY GGGGVKKEDV GGGEKKWFRR DGNGKLTEEA VTEAIGKASQ GLPFEVVYYP  300
TAGWSDFVVR AEDVEASVSV YWAPGTRVKM AMETEDSSRI TWFQGVVSAS FQETWKQLQI  360
TWDEPEILQN LKRVNPWQVE VVVNSSTQLH ATYLPPTKRT KYPSSSGFFG GGEEGEMIYS  420
GRGGQAMDPS HYGYTTYTTV PAGMQGARHY EFGSYNNNNN STGFIGENAH PEFINFFSPL  480
PGLGRVSTSL MVNFGGSPPP SDDLSPNSNT TNVSSGNDAG GNNRGVSFQL FGKVINVQEP  540
AESGGVAESS LCEDDGSKES SDNEAQLVQG HGGR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A2e-541238051388Auxin response factor 5
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. {ECO:0000269|PubMed:12036261}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_03073.1_g00005.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9794800.0JN979480.1 Brassica rapa subsp. pekinensis auxin response factor 17-2 (ARF17-2) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018457532.10.0PREDICTED: auxin response factor 17
SwissprotQ84WU60.0ARFQ_ARATH; Auxin response factor 17
TrEMBLH9B4E10.0H9B4E1_BRARP; Auxin response factor
STRINGBra015651.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM58027130
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G77850.10.0auxin response factor 17
Publications ? help Back to Top
  1. Shi ZH, et al.
    Overexpression of AtTTP affects ARF17 expression and leads to male sterility in Arabidopsis.
    PLoS ONE, 2015. 10(3): p. e0117317
    [PMID:25822980]
  2. de Lucas M, et al.
    Transcriptional Regulation of Arabidopsis Polycomb Repressive Complex 2 Coordinates Cell-Type Proliferation and Differentiation.
    Plant Cell, 2016. 28(10): p. 2616-2631
    [PMID:27650334]
  3. 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]
  4. Wang B, et al.
    Fine regulation of ARF17 for anther development and pollen formation.
    BMC Plant Biol., 2017. 17(1): p. 243
    [PMID:29258431]
  5. Wójcik AM,Nodine MD,Gaj MD
    miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 2024
    [PMID:29321785]
  6. Lin JS, et al.
    MicroRNA160 Modulates Plant Development and Heat Shock Protein Gene Expression to Mediate Heat Tolerance in Arabidopsis.
    Front Plant Sci, 2018. 9: p. 68
    [PMID:29449855]