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 GSBRNA2T00089963001
Common NameGSBRNA2T00089963001
Organism
Brassica napus
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: 681aa    MW: 75551.5 Da    PI: 7.1724
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00089963001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.51.4e-24112213199
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f k+lt+sd+++ g +++p+ +ae++        +++ +  t++ +d +g++W++++iyr++++r++lt+GW+ Fv++++L +gD++vF 
  GSBRNA2T00089963001 112 FAKTLTQSDANNGGGFSVPRYCAETIfprldytAEPPVQ--TVIAKDIHGETWKFRHIYRGTPRRHLLTTGWSTFVNQKKLIAGDSIVFL 199
                          89****************************987555555..8************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            +++++el+v+++r+
  GSBRNA2T00089963001 200 --RSETGELCVGIRRA 213
                          ..459999******97 PP
2Auxin_resp114.59.9e-38257340183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                          a+ +a+ +++FevvY+Prast+eF+vk+++v++a++++++ GmRfkmafetedss++++ +Gtv++v+ +dp+rWpnS+Wr+L+
  GSBRNA2T00089963001 257 AVARAACGQAFEVVYYPRASTPEFCVKASDVRSAMRIRWCSGMRFKMAFETEDSSRISWfMGTVSAVQVADPIRWPNSPWRLLQ 340
                          56778899**************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.107.7E-37104215IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.01E-29105215IPR015300DNA-binding pseudobarrel domain
CDDcd100177.22E-22111212No hitNo description
PROSITE profilePS5086313.239112214IPR003340B3 DNA binding domain
PfamPF023622.8E-22112213IPR003340B3 DNA binding domain
SMARTSM010196.4E-22112214IPR003340B3 DNA binding domain
PfamPF065072.8E-32258340IPR010525Auxin response factor
PROSITE profilePS5174518.934567646IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009734Biological Processauxin-activated signaling pathway
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 681 aa     Download sequence    Send to blast
MEQERSLDPQ LWQACAGSMV QIPSLNSTVF YFPQGHAEHA HAPPDFHAPR VPPLILCRVA  60
SVKFLADAET DEVYSKITLL PLPGNDLDLE NDAVLGLTPS PDVNGNEKPA SFAKTLTQSD  120
ANNGGGFSVP RYCAETIFPR LDYTAEPPVQ TVIAKDIHGE TWKFRHIYRG TPRRHLLTTG  180
WSTFVNQKKL IAGDSIVFLR SETGELCVGI RRAKRGGFLR DDEITTSKLM MMKRNGGNVN  240
DANAPGGRVR VEAVAEAVAR AACGQAFEVV YYPRASTPEF CVKASDVRSA MRIRWCSGMR  300
FKMAFETEDS SRISWFMGTV SAVQVADPIR WPNSPWRLLQ VAWDEPDLLQ NVKRVSPWLV  360
ELVSNMPAIH LSPFSPRKKL RIPQPFDFPF DGTKFPMFSP GFAAGNNGGG ESMCYLSNDN  420
NNNAPAGIQG ARQAQQLFGS PSPSLLSDLN LNTFHSGSKL QQSSSSPAMF LSGFNPRHHY  480
DNIVLPRQTR DAEFNNNISC SLTIGNPGLA QDKKKSDSVK THQFLLFGQP ILTEQQVMNR  540
KRALEEEAEE EEKGGLTWNY GLQGLETGHC KVFMESEDVG RTLDLSVIGS YQELYRKLAE  600
MFGIEERSDL LTHVVYRDAN GVTKRIGDEP FSDFMRATKR LTIKMDISGD NVRKTWITGI  660
RNGENGIDSS TKTGQLSIFA *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A7e-81736151388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.118400.0seed
Expression -- Description ? help Back to Top
Source Description
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). 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
PlantRegMapGSBRNA2T00089963001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9794750.0JN979475.1 Brassica rapa subsp. pekinensis auxin response factor 10 (ARF10) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013637173.10.0PREDICTED: auxin response factor 10
RefseqXP_013692422.10.0auxin response factor 10
SwissprotQ9SKN50.0ARFJ_ARATH; Auxin response factor 10
TrEMBLA0A078FS550.0A0A078FS55_BRANA; Auxin response factor
STRINGBo4g071620.10.0(Brassica oleracea)
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
AT2G28350.10.0auxin response factor 10
Publications ? help Back to Top
  1. Yang ZB, et al.
    TAA1-regulated local auxin biosynthesis in the root-apex transition zone mediates the aluminum-induced inhibition of root growth in Arabidopsis.
    Plant Cell, 2014. 26(7): p. 2889-904
    [PMID:25052716]
  2. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  3. Bennett T,van den Toorn A,Willemsen V,Scheres B
    Precise control of plant stem cell activity through parallel regulatory inputs.
    Development, 2014. 141(21): p. 4055-64
    [PMID:25256342]
  4. Ye Y, et al.
    Germostatin resistance locus 1 encodes a PHD finger protein involved in auxin-mediated seed dormancy and germination.
    Plant J., 2016. 85(1): p. 3-15
    [PMID:26611158]
  5. Nguyen TC,Obermeier C,Friedt W,Abrams SR,Snowdon RJ
    Disruption of Germination and Seedling Development in Brassica napus by Mutations Causing Severe Seed Hormonal Imbalance.
    Front Plant Sci, 2016. 7: p. 322
    [PMID:27014334]
  6. Liu Z, et al.
    Repression of callus initiation by the miRNA-directed interaction of auxin-cytokinin in Arabidopsis thaliana.
    Plant J., 2016. 87(4): p. 391-402
    [PMID:27189514]
  7. 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]
  8. 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]
  9. 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]