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 GSBRNA2T00099262001
Common NameGSBRNA2T00099262001
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: 546aa    MW: 59768.7 Da    PI: 4.8784
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00099262001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.74.5e-23122223199
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f k+ltpsd+++ g +++p+ +a++          ++ +  +l ++d +g +W++++iyr++++r++lt+GW++Fv+ ++L +gD+vvF+
  GSBRNA2T00099262001 122 FAKILTPSDANNGGGFSVPRYCADSVfppldfhADPPVQ--KLFITDIHGVVWDFRHIYRGTPRRHLLTTGWSKFVNGKKLISGDSVVFM 209
                          89*********************999*****97555555..7************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            ++s  e++++v+r+
  GSBRNA2T00099262001 210 --RKSVDEMFIGVRRA 223
                          ..44788899***997 PP
2Auxin_resp69.88.6e-24256330175
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWp 75 
                          a+++a ++ +FevvY+P a++s+Fvv++e+ve ++   +s+G+R+kma+etedss+ ++ +G+v+++ + ++  W+
  GSBRNA2T00099262001 256 AVNKAVQGYPFEVVYYPTAGWSDFVVRAEDVEVSMAGYWSPGTRVKMAMETEDSSRVTWfQGVVSSTFQ-ETGLWK 330
                          6789999****************************************************9999998876.444554 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.107.3E-33112223IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019368.5E-29115229IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086312.605122224IPR003340B3 DNA binding domain
CDDcd100176.98E-19122218No hitNo description
PfamPF023623.7E-20122223IPR003340B3 DNA binding domain
SMARTSM010193.2E-19122224IPR003340B3 DNA binding domain
PfamPF065071.1E-18256330IPR010525Auxin 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:0010208Biological Processpollen wall assembly
GO:0048830Biological Processadventitious root development
GO:0052543Biological Processcallose deposition in cell wall
GO:0005634Cellular Componentnucleus
GO:0000987Molecular Functioncore promoter proximal region sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 546 aa     Download sequence    Send to blast
MSPPPSATAD FLREVDPQIW RACAGASVQI PSLYSRVYYF PQGHVEHSCP SSLISSFSTA  60
APVPCVVSAV ELLADPITDE VFAHLALQPI SPEHFSPSNF SGFGSDDDDD NNSSSSNKVV  120
TFAKILTPSD ANNGGGFSVP RYCADSVFPP LDFHADPPVQ KLFITDIHGV VWDFRHIYRG  180
TPRRHLLTTG WSKFVNGKKL ISGDSVVFMR KSVDEMFIGV RRAPISNHGD EYYGGGKKGF  240
RRIGMGKLTA EAVSEAVNKA VQGYPFEVVY YPTAGWSDFV VRAEDVEVSM AGYWSPGTRV  300
KMAMETEDSS RVTWFQGVVS STFQETGLWK QLQITWDEPE ILQNLKRVNP WQVEVVANSS  360
QLLAIYPPTK RLKHSDSASG FLSGEGEMLY SGRGQQAVDP SPYMFSYTTF PAGMQGARHY  420
EFGSFNSTGF IGENTPQLCT NNFFSPLPGL RKVSTEMMNY GSPLSDDLSP NSNTTNVSSG  480
NELVGNRGHA VRVSSIQLFG QIINVQELTE SGLAEGLYEE DGSKESSDNE VVNETQLSLT  540
YAQGM*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A6e-621536151395Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.131510.0microspore| 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
PlantRegMapGSBRNA2T00099262001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9794790.0JN979479.1 Brassica rapa subsp. pekinensis auxin response factor 17-1 (ARF17-1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013648667.10.0auxin response factor 17-like
RefseqXP_022544696.10.0auxin response factor 17-like
SwissprotQ84WU60.0ARFQ_ARATH; Auxin response factor 17
TrEMBLA0A3P6BG220.0A0A3P6BG22_BRACM; Auxin response factor
STRINGBo6g081980.10.0(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]