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 Seita.5G438100.1.p
Common NameLOC101758683, SETIT_000340mg
Organism
Setaria italica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria
Family ARF
Protein Properties Length: 810aa    MW: 90775.7 Da    PI: 6.3662
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Seita.5G438100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.33e-23129230199
                         EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                         f+k+lt sd++++g +++ +++a+e+       +++++  ++l+ +d++g +W++++i+r++++r++l++GW+ Fv++++L +gD ++F  
  Seita.5G438100.1.p 129 FCKTLTASDTSTHGGFSVLRRHADEClppldmtQSPPT--QELVAKDLHGMEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL- 216
                         99*****************************7555544..58************************************************. PP

                         -SSSEE..EEEEE-S CS
                  B3  85 dgrsefelvvkvfrk 99 
                          + +++el+v+v+r+
  Seita.5G438100.1.p 217 -RGENGELRVGVRRA 230
                         .449999*****996 PP
2Auxin_resp112.44.3e-37255336183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                         a+ha++tks+F+v+Y+Pr+s+seF++++++++++lk+++s+GmRf+m+fe+e+++e+r++Gt+vg ++ldp  Wp+S Wr Lk
  Seita.5G438100.1.p 255 AWHAINTKSMFTVYYKPRTSPSEFIIPYDQYMESLKNNYSIGMRFRMRFEGEEAPEQRFTGTIVGCENLDP-LWPDSSWRYLK 336
                         89*********************************************************************.9*******996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.1E-40120244IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019366.67E-40123258IPR015300DNA-binding pseudobarrel domain
CDDcd100173.88E-21127229No hitNo description
SMARTSM010191.8E-23129231IPR003340B3 DNA binding domain
PROSITE profilePS5086311.928129231IPR003340B3 DNA binding domain
PfamPF023624.0E-21129230IPR003340B3 DNA binding domain
PfamPF065071.7E-33255336IPR010525Auxin response factor
PfamPF023091.3E-13680782IPR033389AUX/IAA domain
SuperFamilySSF542774.76E-13691774No hitNo description
PROSITE profilePS5174524.865697790IPR000270PB1 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: 810 aa     Download sequence    Send to blast
MPPAIMAPPP TPQAPSNSGD PLYPELWRAC AGPLVTVPRP GDLVFYFPQG HIEQVEASMN  60
QVAGNQMRLY DLPSKLLCRV LNVELKAETD TDEVYAQIML MPEPEQNEVA AEKASSGSAA  120
TPRPAVRSFC KTLTASDTST HGGFSVLRRH ADECLPPLDM TQSPPTQELV AKDLHGMEWR  180
FRHIFRGQPR RHLLQSGWSV FVSSKRLVAG DAFIFLRGEN GELRVGVRRA MRQLSNIPSS  240
VISSQSMHLG VLATAWHAIN TKSMFTVYYK PRTSPSEFII PYDQYMESLK NNYSIGMRFR  300
MRFEGEEAPE QRFTGTIVGC ENLDPLWPDS SWRYLKVRWD EPSTIPRPER VSPWKIEPAS  360
SPPVNPLPVS SRVKRPRQNA PQPSPESSVL TKEGASKVDI GSAQTQHQNS VLQGQEQMTL  420
RNNMNESTDS DATVQKPMMW SPSPNGKTHT SFQQRPSMDN WMPLGRRETD FKDNRSAFKD  480
ARTSSQSFGD TQGFFMQTFD DNQHRLSFNN QFQDQGSAHR FADPYFFMPQ QPSLTVESST  540
RTQTANNELR FWSDQNTVYG NTTDQQGFRY GQNPSNWLNQ PFPLVEQPRV VRPHASVAPF  600
DLEKTREGSG FKIFGFKVDT ASASPIQLSS PMSAMREHVV QTQPSASVNE LQPVQTECLP  660
EGSVSTAGTS TENEKSIQQA TQSSKDIQSK SQGASTRSCT KVHKQGVALG RSVDLSKFSD  720
YDELKAELDK MFEFEGELVS ANKNWQIVYT DNEGDMMLVG DDPWEEFCSI VRKIYIYTKE  780
EVQKMNSKSS APRKEEPPAA GEVCAATNE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1672036117357Auxin response factor 1
4ldw_A1e-1672036117357Auxin response factor 1
4ldw_B1e-1672036117357Auxin 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).
Cis-element ? help Back to Top
SourceLink
PlantRegMapSeita.5G438100.1.p
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_004971147.10.0auxin response factor 4 isoform X1
SwissprotQ5JK200.0ARFD_ORYSJ; Auxin response factor 4
TrEMBLK3XEM30.0K3XEM3_SETIT; Auxin response factor
STRINGSi000340m0.0(Setaria italica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP117836111
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.30.0auxin response factor 2
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. Song X, et al.
    Rice RNA-dependent RNA polymerase 6 acts in small RNA biogenesis and spikelet development.
    Plant J., 2012. 71(3): p. 378-89
    [PMID:22443269]
  3. Kishimoto N, et al.
    Identification of the duplicated segments in rice chromosomes 1 and 5 by linkage analysis of cDNA markers of known functions.
    Theor. Appl. Genet., 1994. 88(6-7): p. 722-6
    [PMID:24186168]