PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Csa02g067370.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina
Family ARF
Protein Properties Length: 792aa    MW: 87830.7 Da    PI: 5.9635
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa02g067370.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B376.82.5e-24171272199
                     EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 
                     f+k+lt sd++++g +++p++ ae++      + +++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L +gD v+F   ++++
  Csa02g067370.1 171 FCKTLTASDTSTHGGFSVPRRAAEDCfspldyK-QQRPSQELIAKDLHGVEWKFRHIYRGQPRRHLLTTGWSIFVSQKNLVSGDAVLFL--RDED 262
                     99****************************963.3445679************************************************..5699 PP

                     E..EEEEE-S CS
              B3  90 felvvkvfrk 99 
                     +el+++++r+
  Csa02g067370.1 263 GELRLGIRRA 272
                     999****996 PP

2Auxin_resp1218.7e-40296377182
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                     +a+a+stks+F+v+Y+Pra+++eFv+++ek+ +++++++++G+Rf+m+fe++ds+err++G+v+gv dldp+rWpnSkWr+ 
  Csa02g067370.1 296 VANAVSTKSMFHVFYSPRATHAEFVIPYEKYISSIRNPICIGTRFRMRFEMDDSPERRCAGVVTGVCDLDPYRWPNSKWRCF 377
                     689*****************************************************************************95 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.108.4E-41162285IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.01E-42165280IPR015300DNA-binding pseudobarrel domain
CDDcd100173.54E-21169271No hitNo description
SMARTSM010191.2E-23171273IPR003340B3 DNA binding domain
PROSITE profilePS5086313.38171273IPR003340B3 DNA binding domain
PfamPF023622.5E-22171272IPR003340B3 DNA binding domain
PfamPF065072.0E-33296377IPR010525Auxin response factor
SuperFamilySSF542772.45E-10665744No hitNo description
PROSITE profilePS5174523.609668750IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 792 aa     Download sequence    Send to blast
MEFDLNTEIA EVEEEENDDV VGARVIDKGT LGISPSSSSS CSSGSSSSST GSASSIYSEL  60
WHACAGPLTC LPKKGNVVVY FPQGHLEQDA LVSYSSPLDI PKFDLNPQIF CRVVNVQLLA  120
NKETDEVYTQ VTLLPLQEFS MLNAEGKEVR ELGGEEERNG SSSVKRTPHM FCKTLTASDT  180
STHGGFSVPR RAAEDCFSPL DYKQQRPSQE LIAKDLHGVE WKFRHIYRGQ PRRHLLTTGW  240
SIFVSQKNLV SGDAVLFLRD EDGELRLGIR RAARPRNGLP DSIIEKNSCS NILSLVANAV  300
STKSMFHVFY SPRATHAEFV IPYEKYISSI RNPICIGTRF RMRFEMDDSP ERRCAGVVTG  360
VCDLDPYRWP NSKWRCFLVR WDESFVSDHQ ERVSPWEIDP SVSLPHLSIQ SSPRPKRPWA  420
GLLDTTPSVN PLTAERGGFL DFEESVRPSK VLQGQENIGS ASPSQGFDVM NRRILDFAMQ  480
SHANPVLLSS RVKDRFSEFV DATSLDPACS GVMDLDRFPR VLQGQEICSL KSFPQFAGFS  540
PAATSGKPNL GYTDPFAYQA NKSSFYPLAL HGIRSTHVPY QNAYTAGKQS SGHPSRAINF  600
GEETRKSDAV NESGLPSNVT ADLPFKIDMM GKQKGGDLSM NVSSGCKLFG FSLPVETPAS  660
NPQGSSKRIC TKVHKQGSQV GRAIDLSRLN GYDDLLTELE RLFNMEGLLR DPEKGWRILY  720
TDSENDMMVV GDDPWHDFCN VVWKIHLYTK DEVENANDDN KSCLEQAALM MEASKSSSVS  780
QPDSSPTITR V*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-113444002354Auxin response factor 1
4ldw_A1e-113444002354Auxin response factor 1
4ldw_B1e-113444002354Auxin response factor 1
Search in ModeBase
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
PlantRegMapCsa02g067370.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0808320.0AY080832.1 Arabidopsis thaliana auxin response factor ARF4 (At5g60450) mRNA, complete cds.
GenBankAY1139770.0AY113977.1 Arabidopsis thaliana auxin response factor ARF4 (At5g60450) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010456437.10.0PREDICTED: auxin response factor 4-like isoform X1
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLD7MTU60.0D7MTU6_ARALL; Auxin response factor
STRINGXP_010456437.10.0(Camelina sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM95302636
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60450.10.0auxin response factor 4
Publications ? help Back to Top
  1. Ozerova LV,Krasnikova MS,Troitsky AV,Solovyev AG,Morozov SY
    TAS3 Genes for small ta-siARF RNAs in plants belonging to subtribe Senecioninae: occurrence of prematurely terminated RNA precursors.
    Mol. Gen. Mikrobiol. Virusol., 2013.
    [PMID:24003511]
  2. Machida C,Nakagawa A,Kojima S,Takahashi H,Machida Y
    The complex of ASYMMETRIC LEAVES (AS) proteins plays a central role in antagonistic interactions of genes for leaf polarity specification in Arabidopsis.
    Wiley Interdiscip Rev Dev Biol, 2015 Nov-Dec. 4(6): p. 655-71
    [PMID:26108442]
  3. Pashkovskiy PP,Kartashov AV,Zlobin IE,Pogosyan SI,Kuznetsov VV
    Blue light alters miR167 expression and microRNA-targeted auxin response factor genes in Arabidopsis thaliana plants.
    Plant Physiol. Biochem., 2016. 104: p. 146-54
    [PMID:27031426]
  4. Matsumura Y, et al.
    A genetic link between epigenetic repressor AS1-AS2 and a putative small subunit processome in leaf polarity establishment of Arabidopsis.
    Biol Open, 2016. 5(7): p. 942-54
    [PMID:27334696]
  5. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  6. Liu Z, et al.
    ARF2-ARF4 and ARF5 are Essential for Female and Male Gametophyte Development in Arabidopsis.
    Plant Cell Physiol., 2018. 59(1): p. 179-189
    [PMID:29145642]