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 mrna28545.1-v1.0-hybrid
Organism
Fragaria vesca
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria
Family ARF
Protein Properties Length: 803aa    MW: 88856.3 Da    PI: 6.8329
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
mrna28545.1-v1.0-hybridgenomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3733.7e-23168269199
                              EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EE CS
                       B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfv 80 
                              f+k+lt sd++++g +++p++ ae++      + +++ s++l+ +d++g +W++++iyr++++r++lt+GW+ F ++++L +gD v
  mrna28545.1-v1.0-hybrid 168 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyK-QQRPSQELVAKDLHGVEWRFRHIYRGQPRRHLLTTGWSIFISQKNLVSGDAV 252
                              99****************************963.3445679********************************************* PP

                              EEEE-SSSEE..EEEEE-S CS
                       B3  81 vFkldgrsefelvvkvfrk 99 
                              +F   + +++el+++++r+
  mrna28545.1-v1.0-hybrid 253 LFL--RGENGELRLGIRRA 269
                              ***..4499999****996 PP
2Auxin_resp118.26.9e-39295375282
               Auxin_resp   2 ahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                              a+a+s ks+F+v+Y+Pras++eFv++++k+ +++ ++v++G+Rfkm+f+ +ds+err+sG+v+g+sdldp+rWpnSkWr+L
  mrna28545.1-v1.0-hybrid 295 ANAVSIKSMFHVFYSPRASHAEFVIPYQKYIRSIANPVTMGTRFKMRFDRDDSPERRCSGVVTGISDLDPYRWPNSKWRCL 375
                              7899****************************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.103.6E-40161280IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019366.15E-44162281IPR015300DNA-binding pseudobarrel domain
CDDcd100173.37E-22166268No hitNo description
PfamPF023623.4E-21168269IPR003340B3 DNA binding domain
SMARTSM010192.2E-23168270IPR003340B3 DNA binding domain
PROSITE profilePS5086312.83168270IPR003340B3 DNA binding domain
PfamPF065077.3E-33295375IPR010525Auxin response factor
SuperFamilySSF542777.19E-10672753No hitNo description
PROSITE profilePS5174522.127674758IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
GO:0010050Biological Processvegetative phase change
GO:0010158Biological Processabaxial cell fate specification
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 803 aa     Download sequence    Send to blast
MEFDLNHAVV GDVVEKNAYC NGDCDKGGCA HCLSSSTSSC SSNSSSPPVV SSMYLELWHA  60
CAGPLISLPK KGNVVVYFPQ GHLEQVASSY PPLSSMDMPH FDLQPQIICK VVNVQLLANK  120
ENDEVYTHVT LLPQTKLVGQ NLEGKELEEL GMDEGDGGSP TRSTPHMFCK TLTASDTSTH  180
GGFSVPRRAA EDCFPPLDYK QQRPSQELVA KDLHGVEWRF RHIYRGQPRR HLLTTGWSIF  240
ISQKNLVSGD AVLFLRGENG ELRLGIRRAV RPRNGLPDSV VGNQNSYSSV VSLIANAVSI  300
KSMFHVFYSP RASHAEFVIP YQKYIRSIAN PVTMGTRFKM RFDRDDSPER RCSGVVTGIS  360
DLDPYRWPNS KWRCLMVRWD EDIGNDHQER VSLWEIDPSV SLPPLSIQSS PRLKKLRTSL  420
QAFPPNPSIP AGSCGFMDFE ETVKSSKVLQ GQENMGFISP HYGCDTLKSP VDFEMQPSAH  480
QNLASHITQK ATIGEFMRAH RTSYTGFAES DRFPKVLQGQ EICPLRSLSG KANFNLGDWE  540
SNRGSTSFNS YQAPKPNLFT LGSESLLNMY FPYGDIHKVG QDPMTCSNTT NLARENIKAN  600
TYPVKMGVAR NEVGRPKTLS EHRPQEISSA LPTSLTNVKS PKEVNADGTA SGCKLFGFSL  660
SGETPTLSQS SSKRSCTKVH KQGSLVGRAI DLSKLNGYGD LLSELERLFS MEGLLRDPDK  720
GWRILYTDSE NDVMVVGDDP WHEFCDVVSK IHIYTQEEVE KMTIGMISDD TQSCLEQAPP  780
MLEVSKSSSV GQPDSSPTAI RV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A1e-120393982354Auxin response factor 1
4ldy_B1e-120393982354Auxin response factor 1
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
PlantRegMapmrna28545.1-v1.0-hybrid
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004309870.10.0PREDICTED: auxin response factor 4 isoform X1
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A385NIB60.0A0A385NIB6_FRAAN; Auxin response factor
STRINGXP_004309870.10.0(Fragaria vesca)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF52363252
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60450.10.0auxin response factor 4
Publications ? help Back to Top
  1. 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]
  2. Machida C,Nakagawa A,Kojima S,Takahashi H,Machida Y
    The complex of ASYMMETRIC LEAVES (AS) proteins plays a central role in antagonistic interactions of genes for leaf polarity specification in Arabidopsis.
    Wiley Interdiscip Rev Dev Biol, 2015 Nov-Dec. 4(6): p. 655-71
    [PMID:26108442]
  3. Pashkovskiy PP,Kartashov AV,Zlobin IE,Pogosyan SI,Kuznetsov VV
    Blue light alters miR167 expression and microRNA-targeted auxin response factor genes in Arabidopsis thaliana plants.
    Plant Physiol. Biochem., 2016. 104: p. 146-54
    [PMID:27031426]
  4. Matsumura Y, et al.
    A genetic link between epigenetic repressor AS1-AS2 and a putative small subunit processome in leaf polarity establishment of Arabidopsis.
    Biol Open, 2016. 5(7): p. 942-54
    [PMID:27334696]
  5. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  6. 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]