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 GSBRNA2T00054908001
Common NameGSBRNA2T00054908001
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: 662aa    MW: 73454.6 Da    PI: 6.4326
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00054908001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B367.61.8e-21124224199
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f+k+lt sd++++g +++ +++a+++       +++    ++l+ +d+++++W +++i+r++++r++lt+GW+ Fv++++L +gD ++F 
  GSBRNA2T00054908001 124 FCKTLTASDTSTHGGFSVLRRHADDClppldmsQQP--PWQELVATDLHNNEWHFRHIFRGQPRRHLLTTGWSVFVSSKKLVAGDAFIFL 211
                          99****************************964333..4459************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                             r+++el+v+v+r+
  GSBRNA2T00054908001 212 ---RQNEELRVGVRRH 224
                          ...577889****996 PP
2Auxin_resp112.44.4e-37249331183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          aaha++t+++F+v+Y+Pr+s+seF+v+v+++++a ++k++vGmRfkm+fe+e+++e+r+sGt+vgv++ +++ W++S+WrsLk
  GSBRNA2T00054908001 249 AAHAITTGTIFSVFYKPRTSRSEFIVSVNRYLEAKNQKLAVGMRFKMRFEGEEAPEKRFSGTIVGVQENKSSVWHDSEWRSLK 331
                          79*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019366.77E-43113252IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.2E-38121238IPR015300DNA-binding pseudobarrel domain
CDDcd100172.19E-18122223No hitNo description
SMARTSM010199.7E-19124225IPR003340B3 DNA binding domain
PROSITE profilePS5086310.207124225IPR003340B3 DNA binding domain
PfamPF023622.6E-19124224IPR003340B3 DNA binding domain
PfamPF065072.9E-34249331IPR010525Auxin response factor
PfamPF023098.1E-6531574IPR033389AUX/IAA domain
PROSITE profilePS5174530.558538631IPR000270PB1 domain
SuperFamilySSF542771.63E-11540615No hitNo description
PfamPF023093.4E-6578628IPR033389AUX/IAA domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009734Biological Processauxin-activated signaling pathway
GO:0010150Biological Processleaf senescence
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0042802Molecular Functionidentical protein binding
Sequence ? help Back to Top
Protein Sequence    Length: 662 aa     Download sequence    Send to blast
MAASNHPSGK PGGALSDALC RELWHACAGP LITLPREGER VYYFPEGHME QLEASMHQGL  60
EQQMPSFNLP SKILCKVINI QRKAEPETDE VYAQITLLPE ADQSEPMSPD APVQEPEKCT  120
VHSFCKTLTA SDTSTHGGFS VLRRHADDCL PPLDMSQQPP WQELVATDLH NNEWHFRHIF  180
RGQPRRHLLT TGWSVFVSSK KLVAGDAFIF LRQNEELRVG VRRHMRQQTN IPSSVISSHS  240
MHIGVLATAA HAITTGTIFS VFYKPRTSRS EFIVSVNRYL EAKNQKLAVG MRFKMRFEGE  300
EAPEKRFSGT IVGVQENKSS VWHDSEWRSL KVQWDEPSSV FRPERVSPWE LEPLVANNTL  360
SAHLPPQRNK RPRPPGLLSP TTAPSTPDGV WKSPADNPSS VPLFSPPAKT AAFGLGGNKS  420
FGVSIGSAFW PTHADGAAES FASALNNESP TEKKQTNGNV CRLFGFELVE NMNVDECFSA  480
ASVSGAVAVD QPVPSNEFDS GQQSESLNIN QANLPSGSGD HEKSSLRSPQ ESQSRQIRSC  540
TKVHMQGSAV GRAVDLTRSE CYEDLFKKLE EMFDIKGELL ESTKKWQVVY TDDEDDMMMV  600
GDDPWNEFCG MVRKIFIYTP EEVKKLSPKN KLTVNVRMQP KTDADENGNT EGRSSSMAGS  660
R*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A0.013541355Auxin response factor 1
4ldw_A0.013541355Auxin response factor 1
4ldw_B0.013541355Auxin response factor 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1369373KRPRP
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.134620.0seed
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in the sepals and carpels of young flower buds. At stage 10 of flower development, expression in the carpels becomes restricted to the style. Also expressed in anthers and filaments. At stage 13, expressed in the region at the top of the pedicel, including the abscission zone. {ECO:0000269|PubMed:16176952}.
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 repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Promotes flowering, stamen development, floral organ abscission and fruit dehiscence. Acts as repressor of IAA2, IAA3 and IAA7. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:16176952}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00097PBMTransfer from AT1G59750Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00054908001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9794580.0JN979458.1 Brassica rapa subsp. pekinensis auxin response factor 1 (ARF1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013605280.10.0PREDICTED: auxin response factor 1 isoform X2
SwissprotQ8L7G00.0ARFA_ARATH; Auxin response factor 1
TrEMBLA0A078H9V10.0A0A078H9V1_BRANA; Auxin response factor
STRINGBo1g090350.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM88252227
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G59750.20.0auxin response factor 1
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. Montesinos JC,Pastor-Cantizano N,Robinson DG,Marcote MJ,Aniento F
    Arabidopsis p24δ5 and p24δ9 facilitate Coat Protein I-dependent transport of the K/HDEL receptor ERD2 from the Golgi to the endoplasmic reticulum.
    Plant J., 2014. 80(6): p. 1014-30
    [PMID:25312353]
  3. Marais C, et al.
    The Qb-SNARE Memb11 interacts specifically with Arf1 in the Golgi apparatus of Arabidopsis thaliana.
    J. Exp. Bot., 2015. 66(21): p. 6665-78
    [PMID:26208648]
  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. Zhang M,Hu X,Zhu M,Xu M,Wang L
    Transcription factors NF-YA2 and NF-YA10 regulate leaf growth via auxin signaling in Arabidopsis.
    Sci Rep, 2017. 7(1): p. 1395
    [PMID:28469131]