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 Solyc11g013480.1.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
Family ARF
Protein Properties Length: 343aa    MW: 38288.7 Da    PI: 7.9796
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc11g013480.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.46.7e-24110212199
                         EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                         f+k+ltpsd+++ g +++p+ +a+++        +++ +   l+++d +g  We+++iyr++++r++lt+GW++Fv++++L +gD+ vF++
  Solyc11g013480.1.1 110 FVKILTPSDANNGGGFSVPRFCADSIyprldfeAEPPVQ--NLSIRDIKGVAWEFRHIYRGTPRRHLLTTGWSKFVNSKQLVAGDSAVFMR 198
                         89*********************999*****86555555..7************************************************4 PP

                         -SS.SEE..EEEEE-S CS
                  B3  85 dgr.sefelvvkvfrk 99 
                           r  + +l+v+v+r+
  Solyc11g013480.1.1 199 --RtANNQLYVGVRRA 212
                         ..4488889****996 PP

2Auxin_resp84.32.6e-28257340183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                         +a++a+ + +Fev  +Pr +++ Fvvk+++v+ al+++++vGmR+kma+e edss++ + +Gtv++v   ++  W++S+Wr+L+
  Solyc11g013480.1.1 257 VAEKAARGVPFEVSCYPRDAWAGFVVKAQEVQMALNMPWTVGMRVKMAVEAEDSSRTACyQGTVSSVILNESGPWRGSPWRMLQ 340
                         6789999***************************************************99**********************97 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019368.37E-30104219IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.0E-31105217IPR015300DNA-binding pseudobarrel domain
CDDcd100174.58E-19109211No hitNo description
SMARTSM010196.9E-15110213IPR003340B3 DNA binding domain
PROSITE profilePS5086312.548110213IPR003340B3 DNA binding domain
PfamPF023624.5E-22110212IPR003340B3 DNA binding domain
PfamPF065076.9E-26258340IPR010525Auxin 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:0010208Biological Processpollen wall assembly
GO:0048830Biological Processadventitious root development
GO:0052543Biological Processcallose deposition in cell wall
GO:0005634Cellular Componentnucleus
GO:0000987Molecular Functioncore promoter proximal region sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 343 aa     Download sequence    Send to blast
MQAPTVADRE VDPIVWRAIA GNSVKIPPVG TRVYYFPQGH AEHATFTSPA VMSPGMPAFI  60
LCRVLSVRFL AESDTDEVYA RIFLHPISQS EVDEVTMREE EVVEDEIVSF VKILTPSDAN  120
NGGGFSVPRF CADSIYPRLD FEAEPPVQNL SIRDIKGVAW EFRHIYRGTP RRHLLTTGWS  180
KFVNSKQLVA GDSAVFMRRT ANNQLYVGVR RAIRRNDDSQ KWTSSFLMRE HINNGGSPDV  240
SWGIRKGRMT MEAVAAVAEK AARGVPFEVS CYPRDAWAGF VVKAQEVQMA LNMPWTVGMR  300
VKMAVEAEDS SRTACYQGTV SSVILNESGP WRGSPWRMLQ II*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A5e-641534123333Auxin response factor 1
4ldy_B5e-641534123333Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.132010.0fruit| leaf| stem
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
PlantRegMapSolyc11g013480.1.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHQ4569230.0Solanum lycopersicum auxin response factor 17 mRNA, complete cds
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001234237.20.0auxin response factor 17
SwissprotQ84WU61e-111ARFQ_ARATH; Auxin response factor 17
TrEMBLA0A3Q7ISU20.0A0A3Q7ISU2_SOLLC; Auxin response factor
STRINGSolyc11g013480.1.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA95601924
Representative plantOGRP1509234
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G77850.11e-109auxin response factor 17
Publications ? help Back to Top
  1. Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD
    Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments.
    Theor. Appl. Genet., 2005. 112(1): p. 72-84
    [PMID:16208505]
  2. Shi ZH, et al.
    Overexpression of AtTTP affects ARF17 expression and leads to male sterility in Arabidopsis.
    PLoS ONE, 2015. 10(3): p. e0117317
    [PMID:25822980]
  3. de Lucas M, et al.
    Transcriptional Regulation of Arabidopsis Polycomb Repressive Complex 2 Coordinates Cell-Type Proliferation and Differentiation.
    Plant Cell, 2016. 28(10): p. 2616-2631
    [PMID:27650334]
  4. 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]
  5. Wang B, et al.
    Fine regulation of ARF17 for anther development and pollen formation.
    BMC Plant Biol., 2017. 17(1): p. 243
    [PMID:29258431]
  6. 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]
  7. 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]