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 GSBRNA2T00147919001
Common NameGSBRNA2T00147919001
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: 531aa    MW: 57804.6 Da    PI: 5.1077
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00147919001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B370.81.7e-22115216199
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f kvlt sd+++ g +++p+ +a++          ++ +  +l ++d +g +W++++iyr++++r++lt+GW++Fv++++L  gD+vvF+
  GSBRNA2T00147919001 115 FAKVLTASDANNGGGFSVPRYCADSVfppldfqADPPVQ--KLFITDVHGGVWDFRHIYRGTPRRHLLTTGWSKFVNSKKLICGDSVVFM 202
                          89*********************999*****95444444..8************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            ++s  e++++v+r+
  GSBRNA2T00147919001 203 --RKSVHEMFIGVRRA 216
                          ..44888899***997 PP
2Auxin_resp71.62.4e-24247313368
           Auxin_resp   3 haastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsd 68 
                           +as + +FevvY+P a++seFvv++e+ve++++v +++G+R+kma+etedss++++ +G+v+++ +
  GSBRNA2T00147919001 247 GKASRGLPFEVVYYPTAGWSEFVVRAEDVEASTNVYWTPGTRVKMAMETEDSSRITWfQGIVSATFQ 313
                          5789999**************************************************9999998755 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.97E-28109218IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.6E-32109219IPR015300DNA-binding pseudobarrel domain
SMARTSM010197.1E-20115217IPR003340B3 DNA binding domain
CDDcd100174.78E-19115211No hitNo description
PROSITE profilePS5086312.182115217IPR003340B3 DNA binding domain
PfamPF023627.2E-20115216IPR003340B3 DNA binding domain
PfamPF065072.2E-19248315IPR010525Auxin response factor
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
Sequence ? help Back to Top
Protein Sequence    Length: 531 aa     Download sequence    Send to blast
MSPPSAIADV HRVIDPKIWR ACAGASVQIP ALFSRVYYYP QGHVEHCCPS SSAVTTSPIA  60
CVVSSIDLLA DPITDEVFAH LALLPVAAAA AQDQFQFPPQ SRFEEDGESE KVVTFAKVLT  120
ASDANNGGGF SVPRYCADSV FPPLDFQADP PVQKLFITDV HGGVWDFRHI YRGTPRRHLL  180
TTGWSKFVNS KKLICGDSVV FMRKSVHEMF IGVRRAPISN KSGGGSYYGD EVGMGKLTAE  240
AVSEAIGKAS RGLPFEVVYY PTAGWSEFVV RAEDVEASTN VYWTPGTRVK MAMETEDSSR  300
ITWFQGIVSA TFQETWKQLQ QITWDEPEIL QNLKRVNPWQ VEVVTASSTQ LHATYPPPTK  360
RPKYPHASSG VLSGEEGEMI YYGRGQQAMD PIPYGYTYTT VPAGMQGARH YEFGSYNNST  420
GFIGENAHPE FNFFSPLPGL GRVSTQVMSF GSPPSDDLSP NSNTTNVSSG NDAAGNNRCI  480
SFQLFGKVIN VQEPAESGVA ESSLCEEDGS KESSDNEVPN EAQLLGRGGR *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A3e-641334250388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.149940.0flower| seed
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
PlantRegMapGSBRNA2T00147919001
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_013650019.10.0auxin response factor 17-like
SwissprotQ84WU60.0ARFQ_ARATH; Auxin response factor 17
TrEMBLA0A0D3D1F70.0A0A0D3D1F7_BRAOL; Auxin response factor
STRINGBo6g121520.10.0(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
AT1G77850.10.0auxin response factor 17
Publications ? help Back to Top
  1. 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]
  2. 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]
  3. 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]
  4. 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]
  5. Wang B, et al.
    Fine regulation of ARF17 for anther development and pollen formation.
    BMC Plant Biol., 2017. 17(1): p. 243
    [PMID:29258431]
  6. 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]
  7. 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]