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 GSBRNA2T00086041001
Common NameGSBRNA2T00086041001
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: 845aa    MW: 94366.5 Da    PI: 7.7807
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00086041001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3772.1e-24307408199
                          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+
  GSBRNA2T00086041001 307 FAKTLTQSDANNGGGFSVPRYCAETIfprldynAEPPVQ--TILAKDVHGDVWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFM 394
                          89****************************985444444..8999********************************************* PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            + +++ l+v+++r+
  GSBRNA2T00086041001 395 --RAESGDLCVGIRRA 408
                          ..4489999*****97 PP
2Auxin_resp107.91.1e-35466549183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                          aa+ a ++  FevvY+PrastseF+vk+ + ++a++++++ GmRfkmafetedss++++ +Gtv++vs +dp+rW nS+Wr+L+
  GSBRNA2T00086041001 466 AATLALSGRGFEVVYYPRASTSEFCVKALDARAAMRIPWCSGMRFKMAFETEDSSRISWfMGTVSAVSVSDPIRWLNSPWRLLQ 549
                          5677788999************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.22E-29298409IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.6E-38299413IPR015300DNA-binding pseudobarrel domain
CDDcd100171.70E-21305407No hitNo description
SMARTSM010191.7E-22307409IPR003340B3 DNA binding domain
PROSITE profilePS5086313.267307409IPR003340B3 DNA binding domain
PfamPF023622.3E-22307408IPR003340B3 DNA binding domain
PfamPF065072.1E-29466549IPR010525Auxin response factor
PROSITE profilePS5174517.352758836IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007389Biological Processpattern specification process
GO:0009734Biological Processauxin-activated signaling pathway
GO:0048829Biological Processroot cap development
GO:0051301Biological Processcell division
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 845 aa     Download sequence    Send to blast
MEKFYWAPTR EDHIGVCKGI FRTDKIKDED IVTLVDQFPG QSIVEKISKR LVNSREGPSV  60
FEQPEMTLEK LMEYGNMLVM EQENVKRVRQ ESPASLCNLR CRPRLVDLHR GDGNHIRTFE  120
KPNLSPSYTR TLFISLCTAK VNSYPILKQK LSCRIFRFSR NQEKGFLEQN LQELVSDLLL  180
LFKVLLHLKE MINVMDPMKS GSEKGLDPQL WHACAGGMVR MPPVNSKVFY FPQGHAENAY  240
DHVDFKNLPI PPMVLCRVLA IKYMADPESD EVFAKLRLIP LKDDDHEYGD GQEGNGFESN  300
SEKTPSFAKT LTQSDANNGG GFSVPRYCAE TIFPRLDYNA EPPVQTILAK DVHGDVWKFR  360
HIYRGTPRRH LLTTGWSNFV NQKKLVAGDS IVFMRAESGD LCVGIRRAKR GGIGNGPDYS  420
PGWNPIGGSC GYSSLLREDE SNSLRRSNCS LADRKGKVAA ESVIEAATLA LSGRGFEVVY  480
YPRASTSEFC VKALDARAAM RIPWCSGMRF KMAFETEDSS RISWFMGTVS AVSVSDPIRW  540
LNSPWRLLQV AWDEPDLLQN VKRVNPWLVE LVSNVHPLPL TSFSPPRKKM RLPQHPDYNN  600
LINSIPVPSF PSNPLIRSNP LSSVLDNVPV GLQGARHNAH QYYGLSSSDL HHYYLNRPPP  660
PPQPSALPLS QPLGLRNIDS RNEKGFCFLT MGTTPCNDDT ESKKSHIVLF GKLILPEEQI  720
SEKGSTDTAN TSGGSKLSSS DEGSPCSNKA HDAAGLETGH CKVFMESDDV GRTLDLSVLG  780
SYEELSRKLS DMFGIQKAEM LSSVLYRDAS GAIKYAGNEP FSEFLKTARR LTIVTEQGSE  840
SVVV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A3e-7418857034388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.168461e-124leaf
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00461DAPTransfer from AT4G30080Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00086041001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9794780.0JN979478.1 Brassica rapa subsp. pekinensis auxin response factor 16-2 (ARF16-2) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013593026.10.0PREDICTED: auxin response factor 16
SwissprotQ93YR90.0ARFP_ARATH; Auxin response factor 16
TrEMBLA0A078IBW90.0A0A078IBW9_BRANA; Auxin response factor
STRINGBo7g114200.10.0(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
AT4G30080.10.0auxin response factor 16
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. Zhang GZ, et al.
    Ectopic expression of UGT75D1, a glycosyltransferase preferring indole-3-butyric acid, modulates cotyledon development and stress tolerance in seed germination of Arabidopsis thaliana.
    Plant Mol. Biol., 2016. 90(1-2): p. 77-93
    [PMID:26496910]
  5. 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]
  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]