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 RrC15780_p1
Organism
Raphanus raphanistrum
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: 584aa    MW: 64033.5 Da    PI: 6.7582
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC15780_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B370.13e-22104205199
                  EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE. CS
           B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefe 91 
                  f kvlt sd+++ g +++p+ +a++          ++ +  +l ++d +g +W++++iyr++++r++lt+GW++Fv+ ++L  gD+vvF+  ++s  e
  RrC15780_p1 104 FAKVLTASDANNGGGFSVPRYCADSVfppldfqADPPVQ--KLFITDVHGVVWDFRHIYRGTPRRHLLTTGWSKFVNNKKLICGDSVVFM--RKSVHE 197
                  89*********************999*****95444444..8************************************************..448888 PP

                  .EEEEE-S CS
           B3  92 lvvkvfrk 99 
                  ++++v+r+
  RrC15780_p1 198 MFIGVRRA 205
                  99***997 PP
2Auxin_resp70.64.8e-24269334367
   Auxin_resp   3 haastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvs 67 
                   +as++ +FevvY+P a++s+Fvv++e+ve++++v +++G+R+kma+etedss++++ +G+v++  
  RrC15780_p1 269 GKASQGLPFEVVYYPTAGWSDFVVRAEDVEASVSVYWAPGTRVKMAMETEDSSRITWfQGVVSASF 334
                  57899****************************************************899988654 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-3392211IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.22E-2899205IPR015300DNA-binding pseudobarrel domain
PfamPF023626.6E-20104205IPR003340B3 DNA binding domain
CDDcd100173.24E-18104200No hitNo description
PROSITE profilePS5086312.182104206IPR003340B3 DNA binding domain
SMARTSM010191.3E-18104206IPR003340B3 DNA binding domain
PfamPF065071.2E-18270333IPR010525Auxin 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: 584 aa     Download sequence    Send to blast
SVQIPALFSR VYYFPQGHVE HCCPSSTISS ASAVAASPIP CVVSSISLLA DPVTDEVFAH  60
LSLHPVAHDQ FLPPHPHPHP PSSRFGRFVE EEEESSGEEK VVTFAKVLTA SDANNGGGFS  120
VPRYCADSVF PPLDFQADPP VQKLFITDVH GVVWDFRHIY RGTPRRHLLT TGWSKFVNNK  180
KLICGDSVVF MRKSVHEMFI GVRRAPSSNK SGGGSYYGGG GGGTGDEYYP GYQYYGGGVK  240
KEDGGGEKKW FRRDGNGKLT EEAVTEAIGK ASQGLPFEVV YYPTAGWSDF VVRAEDVEAS  300
VSVYWAPGTR VKMAMETEDS SRITWFQGVV SASFQETWKQ LQNLKRVNPW QVEVVVNSST  360
QLHATYLPPT KRTKYPSSSG FFGGGEEGEM IYSGRGGQAM DPSHYGYTTY TTVPAGMQGA  420
RHYEFGSYNN NNNSTGFIGE NAHPEFINFF SPLPGLGRVS TSLMVNFGGS PPPSDDLSPN  480
SNTTNVSSGN DAGGNNRGVS FQLSLPRAVV WLSLACVKMM EAKSPVTMRP SWCRVMEEGE  540
ASRGAYKDSS RDTEAFATIR HESYLSYFRD YYIYRSLQSV VIGI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A3e-48235364388Auxin 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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
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
AT1G77850.11e-168auxin 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]