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 Spipo26G0026500
Organism
Spirodela polyrhiza
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Alismatales; Araceae; Lemnoideae; Spirodela
Family ARF
Protein Properties Length: 705aa    MW: 77467.3 Da    PI: 6.3413
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Spipo26G0026500genomeMIPS/IBISView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B376.23.7e-24135235198
                      EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                      f+k+lt sd++++g +++ +k+a+e+       ++++++  +l  +d++g +W++k+i+r++++r++lt+GW+ Fv++++L +gD +vF+  + 
  Spipo26G0026500 135 FVKILTASDTSTHGGFSVLRKHANEClppldmtQQIPTQ--ELATKDLHGFEWRFKHIFRGQPRRHLLTTGWSTFVSSKRLVAGDAFVFM--RG 224
                      89****************************987555555..8************************************************..44 PP

                      SEE..EEEEE- CS
               B3  88 sefelvvkvfr 98 
                      +++el+v+v+r
  Spipo26G0026500 225 EKGELRVGVRR 235
                      99*******98 PP
2Auxin_resp965.5e-32261340183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                      a+ha+ t++ F v+Y+Pr+  s F+v+++k+++a+k+ ++vG+Rf+m+fe+ed +e++++Gt+vgv d++p +W +SkWrsLk
  Spipo26G0026500 261 ASHAVMTQTLFIVCYKPRT--SRFIVSLNKYLDAVKHGFAVGTRFRMRFEGEDTPEKSFTGTIVGVGDISP-QWVDSKWRSLK 340
                      689***************6..99**********************************************99.*********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.18E-38127264IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.7E-38129250IPR015300DNA-binding pseudobarrel domain
CDDcd100172.08E-19134235No hitNo description
SMARTSM010191.3E-20135237IPR003340B3 DNA binding domain
PfamPF023624.8E-22135235IPR003340B3 DNA binding domain
PROSITE profilePS5086312.069135237IPR003340B3 DNA binding domain
PfamPF065075.6E-29261340IPR010525Auxin response factor
PfamPF023092.8E-6575623IPR033389AUX/IAA domain
SuperFamilySSF542777.85E-13577663No hitNo description
PROSITE profilePS5174529.23587679IPR000270PB1 domain
PfamPF023091.7E-5632677IPR033389AUX/IAA 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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 705 aa     Download sequence    Send to blast
MAYGSEATAS LPSEKPAPGF SCGSGGEDEL YGELWRACAG PLVEVPRFGS RVYYFPQGHM  60
EQLQASTNQE LDQKIPLFNL PTKILCRVVN VLLRAEPETD EVFAQITLQP EQDQTEPSSP  120
DQCSPELPRP SVNSFVKILT ASDTSTHGGF SVLRKHANEC LPPLDMTQQI PTQELATKDL  180
HGFEWRFKHI FRGQPRRHLL TTGWSTFVSS KRLVAGDAFV FMRGEKGELR VGVRRLARQQ  240
STMPTSVISS QSMHLGVLAT ASHAVMTQTL FIVCYKPRTS RFIVSLNKYL DAVKHGFAVG  300
TRFRMRFEGE DTPEKSFTGT IVGVGDISPQ WVDSKWRSLK VQWDEAAGVQ RPDRVSPWEI  360
EPFTVSAPNV SSPHPPAGKT KRPRSGKDLP ALEVGQRFWY AGARQPNDSG NVGSAEAQSS  420
ETQMLWSPKP GEAKMKSAVS SGSRCIFSGP DGWLQSKPVN SPSHQLTDVS LKLFQGVNVD  480
AKSAPPCRPP SSGLVAEESP LAVRDAKETL KKPDSCSGYR LFGIELVSNS NTAGAFSVSS  540
TTTNEEIAPG TASAGDSDQQ SWLSKTSRER KSLVPKETPA KQNCSTRSRT KVHMQGFAVG  600
RAVDLTVLQG YDELIAELEQ MFEISGELRD RNKWEVVFTD DEGDMMLVGD DPWPEFCKMA  660
RKIFIYTCEE VKNMQPRTSL PSIPVDDEED EGGGDPLGPH QPAP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1672836417356Auxin response factor 1
4ldw_A1e-1672836417356Auxin response factor 1
4ldw_B1e-1672836417356Auxin response factor 1
4ldx_A1e-1672836417356Auxin response factor 1
4ldx_B1e-1672836417356Auxin 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}.
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_010912181.10.0auxin response factor 11 isoform X1
SwissprotQ9C5W90.0ARFR_ARATH; Auxin response factor 18
TrEMBLA0A1D1ZHM80.0A0A1D1ZHM8_9ARAE; Auxin response factor (Fragment)
STRINGXP_008807235.10.0(Phoenix dactylifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP108236116
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G61830.10.0auxin 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]