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 481671
Common NameARALYDRAFT_481671
Organism
Arabidopsis lyrata
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: 698aa    MW: 76935 Da    PI: 7.5699
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
481671genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B376.33.4e-24117218199
             EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEE CS
      B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkv 96 
             f k+lt+sd+++ g +++p+ +ae++        +++ +  t++ +d +g++W++++iyr++++r++lt+GW+ Fv++++L +gD++vF   +++++ l+v++
  481671 117 FAKTLTQSDANNGGGFSVPRYCAETIfprldytAEPPVQ--TVIAKDIHGETWKFRHIYRGTPRRHLLTTGWSTFVNQKKLIAGDSIVFL--RSESGDLCVGI 215
             89****************************987555555..8************************************************..4589999**** PP

             E-S CS
      B3  97 frk 99 
             +r+
  481671 216 RRA 218
             997 PP
2Auxin_resp114.68.9e-38278361183
  Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                 a+ +a+ +++FevvY+Prast+eF+vk+++v++a++++++ GmRfkmafetedss++++ +Gtv++v+ +dp+rWpnS+Wr+L+
      481671 278 AVARAACGQAFEVVYYPRASTPEFCVKAADVRSAMRIRWCSGMRFKMAFETEDSSRISWfMGTVSAVQVADPIRWPNSPWRLLQ 361
                 56778899**************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.107.0E-37110220IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.58E-29113218IPR015300DNA-binding pseudobarrel domain
CDDcd100173.28E-21116217No hitNo description
PROSITE profilePS5086313.155117219IPR003340B3 DNA binding domain
PfamPF023625.7E-22117218IPR003340B3 DNA binding domain
SMARTSM010191.4E-21117219IPR003340B3 DNA binding domain
PfamPF065072.7E-32279361IPR010525Auxin response factor
PROSITE profilePS5174520.481585673IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007389Biological Processpattern specification process
GO:0009734Biological Processauxin-activated signaling pathway
GO:0009738Biological Processabscisic acid-activated signaling pathway
GO:0009743Biological Processresponse to carbohydrate
GO:0010154Biological Processfruit development
GO:0031540Biological Processregulation of anthocyanin biosynthetic process
GO:0048366Biological Processleaf development
GO:0048441Biological Processpetal development
GO:0048442Biological Processsepal development
GO:0048589Biological Processdevelopmental growth
GO:0048829Biological Processroot cap development
GO:0051301Biological Processcell division
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 698 aa     Download sequence    Send to blast
MEQEKSLDPQ LWHACAGSMV QIPSVNSTVF YFAQGHTEHA HAPPDFHAPR VPPLILCRVV  60
SVKFLADAET DEVFAKITLL PLPGNDLDLE NDAVLGLTPP SSDVNVNGNG NEKPASFAKT  120
LTQSDANNGG GFSVPRYCAE TIFPRLDYTA EPPVQTVIAK DIHGETWKFR HIYRGTPRRH  180
LLTTGWSTFV NQKKLIAGDS IVFLRSESGD LCVGIRRAKR GGLGSTGLGS DNPYPGFSGF  240
LRDDETSTTS KLMMMKRNGN DGNAAAGGRV RVEAVAEAVA RAACGQAFEV VYYPRASTPE  300
FCVKAADVRS AMRIRWCSGM RFKMAFETED SSRISWFMGT VSAVQVADPI RWPNSPWRLL  360
QVAWDEPDLL QNVKRVSPWL VELVSNMPAI HLSPFSPRKK IRIPQPFEFP FDGTKFPIFS  420
PGFANNGGGE SMCYLSNDNN NAPAGIQGAR QAQQLFGSPS PSLLSDLNLS SYSSNKLQSP  480
AMFLSGFNPR HHYDNIVSRQ ARDTENSNNI SCSLTIGNPA MVQDKKKSGG SVKTHQFLLF  540
GQPILTEQQV MNRKRSLEEE AEAQEEKSSA ARGLTWNYGF QGLETGHCKV FMESEDVGRT  600
LDLSVIGSYQ ELYRKLAEMF HIEERSDLLT HVVYRDANGA IKRIGDEPFS DFMKSTKRLT  660
IKMDIGGDNV RKTWITGIRT GENGIDATKT GPLSIFA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A3e-80738251388Auxin response factor 5
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
PlantRegMap481671
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF3250730.0AF325073.1 Arabidopsis thaliana unknown protein (At2g28350) mRNA, complete cds.
GenBankAF3369190.0AF336919.1 Arabidopsis thaliana clone C00034 (b) auxin response factor 10 (At2g28350) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020884399.10.0auxin response factor 10
SwissprotQ9SKN50.0ARFJ_ARATH; Auxin response factor 10
TrEMBLD7LHN60.0D7LHN6_ARALL; Auxin response factor
STRINGfgenesh2_kg.4__731__AT2G28350.10.0(Arabidopsis lyrata)
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
AT2G28350.10.0auxin response factor 10
Publications ? help Back to Top
  1. Yang ZB, et al.
    TAA1-regulated local auxin biosynthesis in the root-apex transition zone mediates the aluminum-induced inhibition of root growth in Arabidopsis.
    Plant Cell, 2014. 26(7): p. 2889-904
    [PMID:25052716]
  2. Bennett T,van den Toorn A,Willemsen V,Scheres B
    Precise control of plant stem cell activity through parallel regulatory inputs.
    Development, 2014. 141(21): p. 4055-64
    [PMID:25256342]
  3. Ye Y, et al.
    Germostatin resistance locus 1 encodes a PHD finger protein involved in auxin-mediated seed dormancy and germination.
    Plant J., 2016. 85(1): p. 3-15
    [PMID:26611158]
  4. Nguyen TC,Obermeier C,Friedt W,Abrams SR,Snowdon RJ
    Disruption of Germination and Seedling Development in Brassica napus by Mutations Causing Severe Seed Hormonal Imbalance.
    Front Plant Sci, 2016. 7: p. 322
    [PMID:27014334]
  5. Liu Z, et al.
    Repression of callus initiation by the miRNA-directed interaction of auxin-cytokinin in Arabidopsis thaliana.
    Plant J., 2016. 87(4): p. 391-402
    [PMID:27189514]
  6. 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]
  7. 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]
  8. 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]