PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_013636813.1
Organism
Brassica oleracea
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: 844aa    MW: 92998.6 Da    PI: 6.5088
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013636813.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.45.7e-23126227199
                     EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 
                     f+k+lt sd++++g +++p++ ae+       +++++ + +l  +d++  +W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F   ++++
  XP_013636813.1 126 FCKTLTASDTSTHGGFSVPRRAAEKVfppldySLQPPAQ-ELLARDLHDVEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVIFI--RNEK 217
                     99***********************9*****97777664.9************************************************..5688 PP

                     E..EEEEE-S CS
              B3  90 felvvkvfrk 99 
                      +l+++++r+
  XP_013636813.1 218 NQLFLGIRRA 227
                     8899999986 PP
2Auxin_resp1094.8e-36252335183
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                     aaha +t+s F+v+++Pras+seFv++++k+ ka+  +++svGmRf+m fete+ss rr++Gt++g+sdld+vrW+nS+Wrs+k
  XP_013636813.1 252 AAHASATNSCFTVFFHPRASQSEFVIQLSKYIKAVFhTRISVGMRFRMLFETEESSVRRYMGTITGISDLDSVRWSNSHWRSVK 335
                     799******************************986599******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.44E-47112255IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.2E-39119241IPR015300DNA-binding pseudobarrel domain
CDDcd100171.84E-20125221No hitNo description
SMARTSM010198.9E-23126228IPR003340B3 DNA binding domain
PfamPF023626.9E-21126227IPR003340B3 DNA binding domain
PROSITE profilePS5086311.97126228IPR003340B3 DNA binding domain
PfamPF065072.3E-31252335IPR010525Auxin response factor
SuperFamilySSF542773.53E-7734812No hitNo description
PfamPF023098.3E-8735823IPR033389AUX/IAA domain
PROSITE profilePS5174523.082738822IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009733Biological Processresponse to auxin
GO:0009908Biological Processflower development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 844 aa     Download sequence    Send to blast
MKLSTSGLVQ QSHEGEKCLN SELWHACAGP LVSLPSSGSR VVYFPQGHSE QVAATTNKEV  60
DGHIPNYPSL PPQLICQLHN VTMHADVETD EVYAQMTLQP LTPEEQKETF VPIELGIPSK  120
QPSNYFCKTL TASDTSTHGG FSVPRRAAEK VFPPLDYSLQ PPAQELLARD LHDVEWKFRH  180
IFRGQPKRHL LTTGWSVFVS AKRLVAGDSV IFIRNEKNQL FLGIRRAIRP QTIVPSSVLS  240
SDSMHIGLLA AAAHASATNS CFTVFFHPRA SQSEFVIQLS KYIKAVFHTR ISVGMRFRML  300
FETEESSVRR YMGTITGISD LDSVRWSNSH WRSVKVGWDE STAGERQPRV SLWEIEPLTT  360
FPMYPSLFPL RLKRPWHAGT SSLHGIHPPF VSSPKLLVAI NLNHCGVTDG RGELGSGLPW  420
LRGGGGGEQQ GLLPLNYPSV GLFPWMQQRL DLAQLGTDNN QQYQAMLAAG LQNMGGGDPL  480
RQQFVQLQEP PPSHHQYLQQ SASHNSDLML QQQQQHHLMH AQTQIMCENL PQRQEVSKQQ  540
PAGGGGQQSV DQNAYLNALK MQNGQLQQWQ QHSDMPSPSS FMKADFTDKF ATTASPIQQN  600
SASPGSGHGS NLLNFSITGQ SALPEQLIGE GWSPKASNTF SEPLSLPPQA YAGKSLALEP  660
ASANVNPSVF GVDPGSGLFL PSTVPRFASS SSGGDVEAYP MSLADSGFEN SLYNSCMQDT  720
THELLHGVGQ INPSNQTKNF VKVYKSGSVG RSLDISRFSS YHELREELGK MFAIEGLLED  780
PLRSGWQLVF VDKENDILLL GDDPWESFVS NVWYIKILSP EDVQEMGDHG EGSGGSLPQN  840
PTHL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-152835640388Auxin response factor 5
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in sepals at stages 11, 12 and 13 of flower development. Highly expressed in petals at stages 9-10, decreases at stage 11 and disappears after flower stage 12. In anthers, expressed at stage 11 in the tapetum, disappears early in stage 12 when the tapetum degrades and reappears throughout the anther late in stage 12 to persist at least until stage 13. In stamen filaments, expressed at stages 12 to 13, especially near the apical end of the filament. Expressed throughout the gynoecium at early stages up to stage 12, especially strongly in ovules. Expression in gynoecium decreases late in stage 12, but persists through stage 13, especially near the apical end including the style. Expressed in the mesocarp of the fruit and the carpel septum during fruit growth. {ECO:0000269|PubMed:16107481, ECO:0000269|PubMed:16829592}.
UniprotTISSUE SPECIFICITY: Expressed in the whole plant. {ECO:0000269|PubMed:10476078}.
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). Seems to act as transcriptional activator. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Regulates both stamen and gynoecium maturation. Promotes jasmonic acid production. Partially redundant with ARF6. Involved in fruit initiation. Acts as an inhibitor to stop further carpel development in the absence of fertilization and the generation of signals required to initiate fruit and seed development. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:16107481, ECO:0000269|PubMed:16829592}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00033PBMTransfer from AT5G37020Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_013636813.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by miR167. {ECO:0000269|PubMed:17021043}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9794720.0JN979472.1 Brassica rapa subsp. pekinensis auxin response factor 8-2 (ARF8-2) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013636813.10.0PREDICTED: auxin response factor 8 isoform X1
RefseqXP_013731921.10.0auxin response factor 8-like isoform X1
SwissprotQ9FGV10.0ARFH_ARATH; Auxin response factor 8
TrEMBLA0A3P6C1050.0A0A3P6C105_BRACM; Auxin response factor
TrEMBLH9B4D30.0H9B4D3_BRARP; Auxin response factor
STRINGBra028110.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM13442894
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G37020.10.0auxin response factor 8
Publications ? help Back to Top
  1. Liu N, et al.
    Down-regulation of AUXIN RESPONSE FACTORS 6 and 8 by microRNA 167 leads to floral development defects and female sterility in tomato.
    J. Exp. Bot., 2014. 65(9): p. 2507-20
    [PMID:24723401]
  2. Minato N, et al.
    The phytoplasmal virulence factor TENGU causes plant sterility by downregulating of the jasmonic acid and auxin pathways.
    Sci Rep, 2014. 4: p. 7399
    [PMID:25492247]
  3. Ortega-Amaro MA, et al.
    Overexpression of AtGRDP2, a novel glycine-rich domain protein, accelerates plant growth and improves stress tolerance.
    Front Plant Sci, 2014. 5: p. 782
    [PMID:25653657]
  4. Wang Y, et al.
    MicroRNA167-Directed Regulation of the Auxin Response Factors GmARF8a and GmARF8b Is Required for Soybean Nodulation and Lateral Root Development.
    Plant Physiol., 2015. 168(3): p. 984-99
    [PMID:25941314]
  5. Barik S, et al.
    Coevolution Pattern and Functional Conservation or Divergence of miR167s and their targets across Diverse Plant Species.
    Sci Rep, 2015. 5: p. 14611
    [PMID:26459056]
  6. Pashkovskiy PP,Kartashov AV,Zlobin IE,Pogosyan SI,Kuznetsov VV
    Blue light alters miR167 expression and microRNA-targeted auxin response factor genes in Arabidopsis thaliana plants.
    Plant Physiol. Biochem., 2016. 104: p. 146-54
    [PMID:27031426]
  7. Mlotshwa S,Pruss GJ,MacArthur JL,Reed JW,Vance V
    Developmental Defects Mediated by the P1/HC-Pro Potyviral Silencing Suppressor Are Not Due to Misregulation of AUXIN RESPONSE FACTOR 8.
    Plant Physiol., 2016. 172(3): p. 1853-1861
    [PMID:27688620]
  8. 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]
  9. Zhang GZ, et al.
    Ectopic expression of UGT84A2 delayed flowering by indole-3-butyric acid-mediated transcriptional repression of ARF6 and ARF8 genes in Arabidopsis.
    Plant Cell Rep., 2017. 36(12): p. 1995-2006
    [PMID:29027578]
  10. Zheng K, et al.
    Involvement of PACLOBUTRAZOL RESISTANCE6/KIDARI, an Atypical bHLH Transcription Factor, in Auxin Responses in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 1813
    [PMID:29114256]
  11. 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]
  12. Ghelli R, et al.
    A Newly Identified Flower-Specific Splice Variant of AUXIN RESPONSE FACTOR8 Regulates Stamen Elongation and Endothecium Lignification in Arabidopsis.
    Plant Cell, 2018. 30(3): p. 620-637
    [PMID:29514943]