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 Potri.001G066200.5
Common NamePOPTR_0001s13110g
Organism
Populus trichocarpa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family ARF
Protein Properties Length: 722aa    MW: 81133.6 Da    PI: 7.6246
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.001G066200.5genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3581.7e-181021702899
                         --..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
                  B3  28 gkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 
                         ++++  ++l+ +d++g++W++++i+r++++r++l++GW+ Fv+a++L +gD ++F   + +++el+v+v+r+
  Potri.001G066200.5 102 LQPPA-QELVAKDLHGNEWRFRHIFRGQPRRHLLQSGWSLFVSAKKLVAGDAFIFL--RGETEELRVGVRRA 170
                         45444.489***********************************************..3489999****985 PP
2Auxin_resp118.17e-39195277183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                         ++ha+st+s+F+v+Y+Pr+s++eF+++++k+++++k+++++GmRfkm+fe e+++e+r+sGtv+gv+++dp +Wp+SkWr+Lk
  Potri.001G066200.5 195 VWHAVSTGSMFTVYYKPRTSPAEFIIPIDKYRESVKINYAIGMRFKMKFEAEEAPEQRFSGTVIGVEEADPKKWPRSKWRCLK 277
                         79*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM010191.1E-789171IPR003340B3 DNA binding domain
CDDcd100173.54E-1496169No hitNo description
SuperFamilySSF1019361.77E-2297198IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.3E-2498184IPR015300DNA-binding pseudobarrel domain
PfamPF023623.2E-16101170IPR003340B3 DNA binding domain
PROSITE profilePS5086310.715108171IPR003340B3 DNA binding domain
PfamPF065072.3E-35196277IPR010525Auxin response factor
SuperFamilySSF542772.6E-12594674No hitNo description
PROSITE profilePS5174525.128597679IPR000270PB1 domain
PfamPF023091.5E-7642688IPR033389AUX/IAA domain
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:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 722 aa     Download sequence    Send to blast
MINGSYSVDN KRNGIARGSS SFPVAGEGSE DALYKELWHA CAGPLVTVPR QGELVYYFPQ  60
GHIEQVEAST NQVADDQQMP AYNLPPKILC RVVNVQLKDM SLQPPAQELV AKDLHGNEWR  120
FRHIFRGQPR RHLLQSGWSL FVSAKKLVAG DAFIFLRGET EELRVGVRRA LSQPSNVPSS  180
VMSSHSMHIG ILATVWHAVS TGSMFTVYYK PRTSPAEFII PIDKYRESVK INYAIGMRFK  240
MKFEAEEAPE QRFSGTVIGV EEADPKKWPR SKWRCLKVRW DETSPVHRPD RVSPWKIERA  300
LAPSLDPVPG CQSKRHRSNM ATSSADSSAP TKKDNEPSRH LQHKEILTLR NTHAGKNYSD  360
SKHNPAQALF QGKDQTAFDN RKLGPDDKIP QVMHGAKLMN LTTGPGTLHE SYESTHPFFE  420
LNSDDVDRPS KLNETGMFNC HSAPLMYLGH PFNMMASRME VHVAKDKDIQ QQRGSWFSPL  480
PYADNSSHPS GSKPQHLPFQ QRNKETSKDG NCKLFGFSLF GNPMAAEPAI IHRHSTEKQQ  540
QQINVASDHL KLLGSEGFLE QAKHSKHVRP EEQGNIFQAS ALHSKDVQGM PEGDSTRRCV  600
KVYKQGTAVG RSLDLAKFNG YNELTAELDQ IFEFHGELVA PNKDWLIVFT DDEGDMMLVG  660
DDPWQEFCSM VRRIFVFTRE EINRMEPRSL NLEAEGNSQS ADQMVDLMGD GTSKHLPAVS  720
P*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A5e-943129817353Auxin response factor 1
4ldw_A5e-943129817353Auxin response factor 1
4ldw_B5e-943129817353Auxin response factor 1
4ldx_A7e-943129817353Auxin response factor 1
4ldx_B7e-943129817353Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pth.117330.0bud
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in the sepals and carpels of young flower buds. At stage 10 of flower development, expression in the carpels becomes restricted to the style. Also expressed in anthers and filaments. At stage 13, expressed in the region at the top of the pedicel, including the abscission zone. Expressed in developing siliques. {ECO:0000269|PubMed:15960614, ECO:0000269|PubMed:16176952}.
UniprotTISSUE SPECIFICITY: Expressed in the whole plant. {ECO:0000269|PubMed:10476078, ECO:0000269|PubMed:15960614}.
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
PlantRegMapPotri.001G066200.5
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2084821e-176AC208482.1 Populus trichocarpa clone JGIACSB13-H05, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002299344.20.0auxin response factor 2B isoform X1
RefseqXP_024445165.10.0auxin response factor 2B isoform X1
SwissprotQ94JM30.0ARFB_ARATH; Auxin response factor 2
TrEMBLB9GMS50.0B9GMS5_POPTR; Auxin response factor
STRINGPOPTR_0001s13110.10.0(Populus trichocarpa)
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]