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 Solyc06g075150.2.1
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: 672aa    MW: 74911 Da    PI: 5.841
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc06g075150.2.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B371.69.9e-23103203198
                         EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                         f k+lt+sd+++ g +++p+ +ae++         ++ +   ++ +d +g +W++++iyr++++r++lt+GW+ Fv+ ++L +gD+vvF  
  Solyc06g075150.2.1 103 FAKTLTQSDANNGGGFSVPRYCAETIfpkldftADPPVQ--VVKAKDVHGVTWNFRHIYRGTPRRHLLTSGWSAFVNKKKLVAGDSVVFV- 190
                         89*****************************97656555..799**********************************************. PP

                         -SSSEE..EEEEE- CS
                  B3  85 dgrsefelvvkvfr 98 
                          + ++ el+v+++r
  Solyc06g075150.2.1 191 -KAENDELCVGIRR 203
                         .5588899****98 PP

2Auxin_resp106.62.8e-35265345483
          Auxin_resp   4 aastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                          a+++++Fe+vY+P ast+e++vk+++v++a++v+++ GmRfkmafeted+s++++ +G +++v+ +dp+rWp+S Wr+L+
  Solyc06g075150.2.1 265 LAANGQPFEIVYYPGASTPEYCVKASSVRAAMSVQWCSGMRFKMAFETEDFSQISWfMGSISSVQVVDPIRWPHSLWRLLQ 345
                         6899***************************************************************************97 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019367.59E-2893205IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.4E-3697209IPR015300DNA-binding pseudobarrel domain
CDDcd100176.06E-21102203No hitNo description
PfamPF023621.1E-20103203IPR003340B3 DNA binding domain
PROSITE profilePS5086312.266103205IPR003340B3 DNA binding domain
SMARTSM010197.7E-21103205IPR003340B3 DNA binding domain
PfamPF065072.5E-30263345IPR010525Auxin response factor
PROSITE profilePS5174517.706574652IPR000270PB1 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: 672 aa     Download sequence    Send to blast
MEVVEEKCVD SLFWHVCTGS MVQIPPVNSK VFYFPQGYAE HTFTNVDFTV LARIPAMILC  60
RVDAVKFLAD TETDEVYAKI RLIPVEDFED DSVVEETEKP AFFAKTLTQS DANNGGGFSV  120
PRYCAETIFP KLDFTADPPV QVVKAKDVHG VTWNFRHIYR GTPRRHLLTS GWSAFVNKKK  180
LVAGDSVVFV KAENDELCVG IRRVKRGGIG GPETQSGWKS TACSYGGFVT EDENSSTNGN  240
LISYGERFRD KGKVSPDEVV RASCLAANGQ PFEIVYYPGA STPEYCVKAS SVRAAMSVQW  300
CSGMRFKMAF ETEDFSQISW FMGSISSVQV VDPIRWPHSL WRLLQVTWDE PDLLQNVKSV  360
NPWLVELVSN MPDINLSHNS PPRKRLCLPQ EFPFDGQFPL PSFSGNPLTS SSYSRYPSDS  420
ITAGIQGARH VRFGVPLLDL HRSEKLQLGV LQPPVSQQAD ADSEIPIGTS KVQKESNENI  480
SCLLTMGTSS QMEKADNVKT PRFLLFGQPI LTEQQMSSVL STHAPPQVQT ERNSDWAQLK  540
TERITPDWKC LSESLSSTFL WNKGYHAAEL GASTDHCKVF LDSEDVGRTL DLSVLGSYAE  600
LYKRLADMFE MERLDMVTRV LYLDATGASK QIGDEPFSDF IKTAKRLTIL KKSGNSATRK  660
WLTDLPILNV V*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A7e-75936651388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.240770.0fruit| leaf
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, culms, leaves and young panicles. {ECO:0000269|PubMed:17408882}.
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).
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc06g075150.2.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHM1952470.0Solanum lycopersicum auxin response factor 16 (ARF16) mRNA, complete cds
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001234880.20.0auxin response factor
SwissprotQ653H70.0ARFR_ORYSJ; Auxin response factor 18
TrEMBLA0A3Q7H3N80.0A0A3Q7H3N8_SOLLC; Auxin response factor
STRINGSolyc06g075150.2.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA59224115
Representative plantOGRP5261578
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G30080.10.0auxin response factor 16
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. 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]
  3. Wu J, et al.
    Identification, isolation and expression analysis of auxin response factor (ARF) genes in Solanum lycopersicum.
    Plant Cell Rep., 2011. 30(11): p. 2059-73
    [PMID:21735233]
  4. Huang J,Li Z,Zhao D
    Deregulation of the OsmiR160 Target Gene OsARF18 Causes Growth and Developmental Defects with an Alteration of Auxin Signaling in Rice.
    Sci Rep, 2016. 6: p. 29938
    [PMID:27444058]