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.014G100100.3
Common NamePOPTR_0014s09560g
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: 539aa    MW: 59862.5 Da    PI: 8.9169
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.014G100100.3genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B356.45.5e-188703498
                        SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
                  B3 34 ktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98
                        ++l  +d++g +W++k+i+r++++r++lt+GW+ Fv +++L +gD++vF   + +++el+v+++r
  Potri.014G100100.3  8 QELAARDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDSFVFL--RGDNGELRVGLRR 70
                        58999*********************************************..3489999***998 PP
2Auxin_resp93.14.4e-3196175183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                         a+ha+ t++ F v+Y+Pr+   ++++ ++k+++a+k+ +svGmRfkm+fe+ed +err++Gt+vgv d++p +W++S WrsLk
  Potri.014G100100.3  96 ASHAVLTHTLFVVYYKPRT--NQYIIGLNKYLEAVKNGFSVGMRFKMRFEGEDTPERRFTGTIVGVGDISP-EWSGSIWRSLK 175
                         689999************6..99**********************************************99.*********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM010193.3E-4172IPR003340B3 DNA binding domain
PROSITE profilePS5086312.633172IPR003340B3 DNA binding domain
SuperFamilySSF1019364.45E-22299IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.8E-24285IPR015300DNA-binding pseudobarrel domain
PfamPF023627.0E-16770IPR003340B3 DNA binding domain
CDDcd100173.94E-13870No hitNo description
PfamPF065073.0E-2996175IPR010525Auxin response factor
PfamPF023097.9E-13401511IPR033389AUX/IAA domain
SuperFamilySSF542773.86E-12417499No hitNo description
PROSITE profilePS5174524.937423515IPR000270PB1 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: 539 aa     Download sequence    Send to blast
MSQATPTQEL AARDLHGYEW RFKHIFRGQP RRHLLTTGWS TFVTSKRLVA GDSFVFLRGD  60
NGELRVGLRR VARQQCSIPS SVISSQSMHL GVLATASHAV LTHTLFVVYY KPRTNQYIIG  120
LNKYLEAVKN GFSVGMRFKM RFEGEDTPER RFTGTIVGVG DISPEWSGSI WRSLKIQWDE  180
PATIQRPERV SPWDIEPFAA PASPNLTQQV VKSKRPRSVD IPTSAASAFW YHGPTQSREL  240
VQRGSITEVQ SSESHVWSMR QKEIDSNLNN NGSCNSRARP EGIWPSSSHM NVSLNFFPDS  300
AADNKCAKTQ SIISGFASSI SRQSNGLINE QVERGRKFEN SVGCRLFGID LTSNSGIAAV  360
PEKEPAYPIV DYNGTQGLVP ASSEAEKAQT MDVSMSSKEQ KQVVPDTLAK ESQSKQGSTT  420
STRTRTKVQM QGVAVGRALD LTVLKGYKDL INELEKMFET GGELSTREKW AVVFTDNEGD  480
MMLVGDDPWP EFCKMVKKIF IYSSEEVKKM STRCKLPASS FEGEGTVVSM ESEHKSDA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A2e-931198155355Auxin response factor 1
4ldw_A2e-931198155355Auxin response factor 1
4ldw_B2e-931198155355Auxin response factor 1
4ldx_A2e-931198155355Auxin response factor 1
4ldx_B2e-931198155355Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pth.68130.0catkin
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
PlantRegMapPotri.014G100100.3
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKT1646980.0KT164698.1 Populus tomentosa clone Potom.002G07206 auxin response factor 11 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006375372.10.0auxin response factor 18 isoform X2
RefseqXP_024440876.10.0auxin response factor 18 isoform X1
SwissprotQ9C5W91e-172ARFR_ARATH; Auxin response factor 18
TrEMBLA0A2K1XT900.0A0A2K1XT90_POPTR; Auxin response factor
STRINGPOPTR_0014s09560.10.0(Populus trichocarpa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G61830.11e-166auxin response factor 18
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. 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]