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 XP_009106427.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family ARF
Protein Properties Length: 546aa    MW: 59884.9 Da    PI: 5.4809
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009106427.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B370.81.8e-22112213199
                     EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                     f kvlt sd+++ g +++p+ +a++          ++ +  +l ++d +g +W++++iyr++++r++lt+GW++Fv++++L  gD+vvF+  ++s
  XP_009106427.1 112 FAKVLTASDANNGGGFSVPRYCADSVfppldfqADPPVQ--KLFITDVHGGVWDFRHIYRGTPRRHLLTTGWSKFVNSKKLICGDSVVFM--RKS 202
                     89*********************999*****95444444..8************************************************..448 PP

                     EE..EEEEE-S CS
              B3  89 efelvvkvfrk 99 
                       e++++v+r+
  XP_009106427.1 203 VHEMFIGVRRA 213
                     88899***997 PP
2Auxin_resp71.42.8e-24264330368
      Auxin_resp   3 haastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsd 68 
                      +as + +FevvY+P a++seFvv++e+ve++++v +++G+R+kma+etedss++++ +G+v+++ +
  XP_009106427.1 264 GKASRGLPFEVVYYPTAGWSEFVVRAEDVEASTNVYWTPGTRVKMAMETEDSSRITWfQGIVSATFQ 330
                     5789999**************************************************9999987655 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.2E-32104223IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.01E-28105217IPR015300DNA-binding pseudobarrel domain
PfamPF023627.6E-20112213IPR003340B3 DNA binding domain
PROSITE profilePS5086312.182112214IPR003340B3 DNA binding domain
CDDcd100175.18E-19112208No hitNo description
SMARTSM010197.1E-20112214IPR003340B3 DNA binding domain
PfamPF065073.0E-19265330IPR010525Auxin 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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 546 aa     Download sequence    Send to blast
MSPPSAIADV HRVIDPKIWR ACAGASVKIP ALFSRVYYYP QGHVEHCCPS SSAVTASPIA  60
CVVSSIDLLA DPITDEVFAH LTLHPAAAQD QFQFPPQSRF EEEDESEKVV TFAKVLTASD  120
ANNGGGFSVP RYCADSVFPP LDFQADPPVQ KLFITDVHGG VWDFRHIYRG TPRRHLLTTG  180
WSKFVNSKKL ICGDSVVFMR KSVHEMFIGV RRAPISNKSG GSSYYGDEYF PGGYYGVKKE  240
DGGEKFRRVG MGKLTAEAVS EAIGKASRGL PFEVVYYPTA GWSEFVVRAE DVEASTNVYW  300
TPGTRVKMAM ETEDSSRITW FQGIVSATFQ ETWKQLQITW DEPEILQNLK RVNPWQVEAV  360
TASSTQLHAT YPPPPKRSKY PHASSGVLSG EEGEMIYYGR GQQTMDPIPY GYTYTTVPAG  420
MQGARHYEFG SYNNSTGFIG ENAHPEFNFF SPLPGLGRVS TQMMSFGSPP SDELSPNSNT  480
TNVSSGNDAA GNNRGISFQL FGKVINVQEP AESGVAESSL CEEDGSKESS DNEVPNEAQL  540
LGRGGR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A5e-631335950389Auxin 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
PlantRegMapXP_009106427.1
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_009106427.10.0PREDICTED: 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]