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 Csa18g035400.1
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: 857aa    MW: 95399.4 Da    PI: 6.5173
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa18g035400.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B371.51.1e-22161262199
                     EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 
                     f+k+lt sd++++g +++ +++a+e+      + + + +++l+ +d++ ++W++++i+r++++r++l++GW+ Fv++++L +gD ++F   + ++
  Csa18g035400.1 161 FCKTLTASDTSTHGGFSVLRRHADEClppldmSRQ-PPTQELVAKDLHANEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--RGEN 252
                     99*****************************7333.34459************************************************..4499 PP

                     E..EEEEE-S CS
              B3  90 felvvkvfrk 99 
                     +el+v+v+r+
  Csa18g035400.1 253 GELRVGVRRA 262
                     99*****996 PP

2Auxin_resp121.18.1e-40287369183
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                     a+ha+st+++F+v+Y+Pr+s+seF+v+++++++++k+++s+GmRfkm+fe+e+++e+r++Gt+vg++d+dp+rWp+SkWrsLk
  Csa18g035400.1 287 AWHAISTGTMFTVYYKPRTSPSEFIVPFDQYMESVKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGTEDSDPTRWPKSKWRSLK 369
                     89*******************************************************************************96 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.2E-40157276IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.01E-40157290IPR015300DNA-binding pseudobarrel domain
CDDcd100171.45E-20159261No hitNo description
PROSITE profilePS5086311.42161263IPR003340B3 DNA binding domain
PfamPF023621.5E-20161262IPR003340B3 DNA binding domain
SMARTSM010194.1E-22161263IPR003340B3 DNA binding domain
PfamPF065074.5E-37287369IPR010525Auxin response factor
PfamPF023099.0E-10707815IPR033389AUX/IAA domain
SuperFamilySSF542779.32E-12728807No hitNo description
PROSITE profilePS5174525.174730814IPR000270PB1 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: 857 aa     Download sequence    Send to blast
MASSEVSMKG NRGGENFSSS AFTDPKETRN VSVPGEGQNC HSTRSERAVD PEAALYRELW  60
HACAGPLVTV PRQDDRVFYF PQGHIEQVEA STNQAAEQQM PLYDLPSKLL CRVINVDLKA  120
EADTDEVYAQ ITLVPEANQD ENAIEKEAPP PPPPRFQVHS FCKTLTASDT STHGGFSVLR  180
RHADECLPPL DMSRQPPTQE LVAKDLHANE WRFRHIFRGQ PRRHLLQSGW SVFVSSKRLV  240
AGDAFIFLRG ENGELRVGVR RAMRQQGNVP SSVISSHSMH LGVLATAWHA ISTGTMFTVY  300
YKPRTSPSEF IVPFDQYMES VKNNYSIGMR FKMRFEGEEA PEQRFTGTIV GTEDSDPTRW  360
PKSKWRSLKV RWDETSSIPR PDRVSPWKIE PALAPPALSP VPMPRPKRPR SNIAPSSPDS  420
SILTREGTAK ANMDPLPASG LSRVLQGQEY STLRTKHTES VECDAPENSV VWQSSADDDK  480
VDVVSGSRRY GSENWMSSAR HEPTYTDLLS GFGTNIDPPH GQRIPFYDHS SSPSMPAKKI  540
SSDPEGKFDY LANQWQMMHS GLSLKLHESP KVPSASDTSF QGRGNGKYSE YPVLNGLSTE  600
NTGGNWPIRP RALNYFEEVV QAQAQAQARE QVTKQSMTIQ EETAKSRDGN CRLFGIPLNN  660
NMNGTDSSLY QRNNLNDAAG LTQIASPKVQ DLSDQSKGSK STNEHREQGG PFQTNYPHPK  720
DAHAKTSSSR SCTKVHKQGI ALGRSVDLSK FQNYEELIAE LDRLFEFNGE LMAPKKDWLI  780
VYTDDENDMM LVGDDPWQEF CCMVRKIFIY TKEEVRKMNP GTLSCRSEEE AVVGEGSDAK  840
DAKSASNPSL SSAGNS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1805439118354Auxin response factor 1
4ldw_A1e-1805439118354Auxin response factor 1
4ldw_B1e-1805439118354Auxin response factor 1
4ldx_A1e-1805439118354Auxin response factor 1
4ldx_B1e-1805439118354Auxin 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. Promotes flowering, stamen development, floral organ abscission and fruit dehiscence. Functions independently of ethylene and cytokinin response pathways. May act as a repressor of cell division and organ growth. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:15960614, ECO:0000269|PubMed:16176952, ECO:0000269|PubMed:16339187}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCsa18g035400.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2212520.0AK221252.1 Arabidopsis thaliana mRNA for ARF1-binding protein, complete cds, clone: RAFL24-07-O11.
GenBankAK2212540.0AK221254.1 Arabidopsis thaliana mRNA for ARF1-binding protein, complete cds, clone: RAFL24-09-L23.
GenBankAK2212740.0AK221274.1 Arabidopsis thaliana mRNA for ARF1-binding protein, complete cds, clone: RAFL24-16-M02.
GenBankAK2213050.0AK221305.1 Arabidopsis thaliana mRNA for ARF1-binding protein, complete cds, clone: RAFL24-31-F22.
GenBankBT0007840.0BT000784.1 Arabidopsis thaliana clone RAFL07-10-G12 (R10939) auxin response factor (At5g62000) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010483894.10.0PREDICTED: auxin response factor 2
SwissprotQ94JM30.0ARFB_ARATH; Auxin response factor 2
TrEMBLA0A178UUC30.0A0A178UUC3_ARATH; Auxin response factor
STRINGXP_010483894.10.0(Camelina sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM53482647
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.30.0auxin response factor 2
Publications ? help Back to Top
  1. Chao WS,Doğramaci M,Foley ME,Horvath DP,Anderson JV
    Selection and validation of endogenous reference genes for qRT-PCR analysis in leafy spurge (Euphorbia esula).
    PLoS ONE, 2012. 7(8): p. e42839
    [PMID:22916167]
  2. 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]
  3. Li C, et al.
    Ectopic expression of a maize hybrid down-regulated gene ZmARF25 decreases organ size by affecting cellular proliferation in Arabidopsis.
    PLoS ONE, 2014. 9(4): p. e94830
    [PMID:24756087]
  4. Lyons R, et al.
    Fusarium oxysporum triggers tissue-specific transcriptional reprogramming in Arabidopsis thaliana.
    PLoS ONE, 2015. 10(4): p. e0121902
    [PMID:25849296]
  5. Roodbarkelari F,Du F,Truernit E,Laux T
    ZLL/AGO10 maintains shoot meristem stem cells during Arabidopsis embryogenesis by down-regulating ARF2-mediated auxin response.
    BMC Biol., 2015. 13: p. 74
    [PMID:26358077]
  6. Meng LS,Wang ZB,Yao SQ,Liu A
    The ARF2-ANT-COR15A gene cascade regulates ABA-signaling-mediated resistance of large seeds to drought in Arabidopsis.
    J. Cell. Sci., 2015. 128(21): p. 3922-32
    [PMID:26395398]
  7. Zhao S,Zhang ML,Ma TL,Wang Y
    Phosphorylation of ARF2 Relieves Its Repression of Transcription of the K+ Transporter Gene HAK5 in Response to Low Potassium Stress.
    Plant Cell, 2016. 28(12): p. 3005-3019
    [PMID:27895227]
  8. Promchuea S,Zhu Y,Chen Z,Zhang J,Gong Z
    ARF2 coordinates with PLETHORAs and PINs to orchestrate ABA-mediated root meristem activity in Arabidopsis .
    J Integr Plant Biol, 2017. 59(1): p. 30-43
    [PMID:28074634]
  9. 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]
  10. Sanz-Fernández M, et al.
    Screening Arabidopsis mutants in genes useful for phytoremediation.
    J. Hazard. Mater., 2017. 335: p. 143-151
    [PMID:28441590]
  11. 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]
  12. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  13. 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]
  14. Sarkar Das S, et al.
    Expression dynamics of miRNAs and their targets in seed germination conditions reveals miRNA-ta-siRNA crosstalk as regulator of seed germination.
    Sci Rep, 2018. 8(1): p. 1233
    [PMID:29352229]