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 AT1G34170.1
Common NameARF13, F12G12.1, F23M19.15
Organism
Arabidopsis thaliana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family ARF
Protein Properties Length: 505aa    MW: 57347.7 Da    PI: 8.2014
Description AUXIN RESPONSE FACTOR 13
Gene Model
Gene Model ID Type Source Coding Sequence
AT1G34170.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B365.76.7e-21124227199
                  EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-..TTHHHHHHHHT--TT-EEEEEE-SSSEE. CS
           B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvlt..kGWkeFvkangLkegDfvvFkldgrsefe 91 
                  f k+lt sdv+ sg l++pk++a e+     ++++ +++ l+ +d+ g++W++k+ +r++++r+++t  +GW+ F+  ++L +gD++v+   + +++e
  AT1G34170.1 124 FSKILTASDVSLSGGLIIPKQYAIECfppldMSQPISTQNLVAKDLYGQEWSFKHVFRGTPQRHMFTsgGGWSVFATTKRLIVGDIFVLL--RGENGE 219
                  889***************************9777888999***********************99997789*******************..449999 PP

                  .EEEEE-S CS
           B3  92 lvvkvfrk 99 
                  l+++++r+
  AT1G34170.1 220 LRFGIRRA 227
                  *****997 PP
2Auxin_resp100.22.8e-33252331183
   Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                  +++a++tk++F+vvY+P+  +s+Fv++++k+++a++++++vG+Rf+m+fe++d+se+r+ Gt++gv+d++p +W++S+WrsLk
  AT1G34170.1 252 VVNAFKTKCMFNVVYKPS--SSQFVISYDKFVDAMNNNYIVGSRFRMQFEGKDFSEKRYDGTIIGVNDMSP-HWKDSEWRSLK 331
                  6899*************8..59*************************************************.*********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.92E-27121232IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.1E-33121241IPR015300DNA-binding pseudobarrel domain
CDDcd100175.89E-22123226No hitNo description
PfamPF023628.4E-19124227IPR003340B3 DNA binding domain
PROSITE profilePS5086312.816124228IPR003340B3 DNA binding domain
SMARTSM010193.9E-26124228IPR003340B3 DNA binding domain
PfamPF065074.1E-29253331IPR010525Auxin 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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 505 aa     Download sequence    Send to blast
MENNGEMNAQ PELSVDITKT YMYEKLWNIC AGPLCVLPKP GEKVYYFPQG HIELIENSTR  60
DELDHIRPIF DLPSKLRCRV VAIDRKVDKN TDEVYAQISL MPDTTEVMTH NTTMDTRRPI  120
VYFFSKILTA SDVSLSGGLI IPKQYAIECF PPLDMSQPIS TQNLVAKDLY GQEWSFKHVF  180
RGTPQRHMFT SGGGWSVFAT TKRLIVGDIF VLLRGENGEL RFGIRRAKHQ QGHIPSSVIS  240
ANCMQHGVIA SVVNAFKTKC MFNVVYKPSS SQFVISYDKF VDAMNNNYIV GSRFRMQFEG  300
KDFSEKRYDG TIIGVNDMSP HWKDSEWRSL KVQWDELSPF LRPNQVSPWD IEHLIPSSDI  360
SQSSLKKKKH WLQLNEIGAT LSNLWTCQEI GQRSMNSPIS VPEFSYPNAI EDSKFLSGLL  420
LNHSLLAIPN ENYNSDQMIQ PRKEDITTEA TTSCLLFGVD LTKVSKSKDS ICPIESCKKS  480
EISKLKNQKA TTSCLKIKSL TKPNL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1162535422355Auxin response factor 1
4ldw_A1e-1162535422355Auxin response factor 1
4ldw_B1e-1162535422355Auxin response factor 1
Search in ModeBase
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO793565380.0
Genevisible256026_at1e-141
Expression AtlasAT1G34170-
AtGenExpressAT1G34170-
ATTED-IIAT1G34170-
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
PlantRegMapAT1G34170.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Interaction ? help Back to Top
Source Intact With
IntActSearch Q9FX25
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT1G34170
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY6697930.0AY669793.1 Arabidopsis thaliana clone C105348 (B) ARF13 (At1g34170) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_174679.30.0AUXIN RESPONSE FACTOR 13
SwissprotQ9FX250.0ARFM_ARATH; Auxin response factor 13
TrEMBLF4HT520.0F4HT52_ARATH; Auxin response factor
STRINGAT1G34170.30.0(Arabidopsis thaliana)
Publications ? help Back to Top
  1. Riechmann JL, et al.
    Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.
    Science, 2000. 290(5499): p. 2105-10
    [PMID:11118137]
  2. Hagen G,Guilfoyle T
    Auxin-responsive gene expression: genes, promoters and regulatory factors.
    Plant Mol. Biol., 2002 Jun-Jul. 49(3-4): p. 373-85
    [PMID:12036261]
  3. Remington DL,Vision TJ,Guilfoyle TJ,Reed JW
    Contrasting modes of diversification in the Aux/IAA and ARF gene families.
    Plant Physiol., 2004. 135(3): p. 1738-52
    [PMID:15247399]
  4. Okushima Y, et al.
    Functional genomic analysis of the AUXIN RESPONSE FACTOR gene family members in Arabidopsis thaliana: unique and overlapping functions of ARF7 and ARF19.
    Plant Cell, 2005. 17(2): p. 444-63
    [PMID:15659631]
  5. Axtell MJ,Snyder JA,Bartel DP
    Common functions for diverse small RNAs of land plants.
    Plant Cell, 2007. 19(6): p. 1750-69
    [PMID:17601824]
  6. Manzano C,Abraham Z,L
    Identification of ubiquitinated proteins in Arabidopsis.
    Plant Mol. Biol., 2008. 68(1-2): p. 145-58
    [PMID:18535787]
  7. Swaminathan K,Peterson K,Jack T
    The plant B3 superfamily.
    Trends Plant Sci., 2008. 13(12): p. 647-55
    [PMID:18986826]
  8. Vernoux T, et al.
    The auxin signalling network translates dynamic input into robust patterning at the shoot apex.
    Mol. Syst. Biol., 2011. 7: p. 508
    [PMID:21734647]