PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Brast09G253300.1.p
Organism
Brachypodium stacei
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium
Family ARF
Protein Properties Length: 827aa    MW: 92088.2 Da    PI: 6.2863
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Brast09G253300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.93.9e-23141242199
                         EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                         f+k+lt sd++++g +++p++ ae+        ++++++  +l+ +d +  +W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F  
  Brast09G253300.1.p 141 FCKTLTASDTSTHGGFSVPRRAAERVfppldftQQPPAQ--ELIARDIHDVEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI- 228
                         99***********************9*****86555544..8************************************************. PP

                         -SSSEE..EEEEE-S CS
                  B3  85 dgrsefelvvkvfrk 99 
                          ++++ +l+++++r+
  Brast09G253300.1.p 229 -WNEKNQLWLGIRRA 242
                         .8999999*****97 PP
2Auxin_resp110.41.8e-36267350183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                         aahaast+s F+++YnPra++seFv++++k+ ka+  +++svGmRf+m fete+ss rr++Gt++ vsd+dpvrW  S Wrs+k
  Brast09G253300.1.p 267 AAHAASTNSRFTIFYNPRACPSEFVIPLSKYIKAVFhTRISVGMRFRMLFETEESSVRRYMGTITEVSDADPVRWASSYWRSVK 350
                         79*******************************986599******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019367.85E-48126270IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.108.5E-41133256IPR015300DNA-binding pseudobarrel domain
CDDcd100171.86E-21140241No hitNo description
SMARTSM010197.6E-24141243IPR003340B3 DNA binding domain
PROSITE profilePS5086312.083141243IPR003340B3 DNA binding domain
PfamPF023621.7E-21141242IPR003340B3 DNA binding domain
PfamPF065071.2E-31267350IPR010525Auxin response factor
PfamPF023094.4E-5618814IPR033389AUX/IAA domain
SuperFamilySSF542772.03E-7722802No hitNo description
PROSITE profilePS5174524.037727811IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009733Biological Processresponse to auxin
GO:0009908Biological Processflower development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 827 aa     Download sequence    Send to blast
MSSSSGASVG QQQQPPPPAA PPEEGACWLE KKNLNSELWH ACAGPLVCLP TVGTRVVYFP  60
QGHSEQVAAS TNKEVEGHIP NYPNLPPQLI CQLHDVTMHA DVETDEVYAQ MTLQPLNPQE  120
QNDAYLPAEM GIMSKQPTNY FCKTLTASDT STHGGFSVPR RAAERVFPPL DFTQQPPAQE  180
LIARDIHDVE WKFRHIFRGQ PKRHLLTTGW SVFVSAKRLV AGDSVLFIWN EKNQLWLGIR  240
RASRTQTVMP SSVLSSDSMH IGLLAAAAHA ASTNSRFTIF YNPRACPSEF VIPLSKYIKA  300
VFHTRISVGM RFRMLFETEE SSVRRYMGTI TEVSDADPVR WASSYWRSVK VGWDESTAGE  360
RPPRVSLWEI EPLTTFPMYP SLFPLRVKHP WYSGVAGLHD DSNALMWLRG VAGDGGYQSL  420
NFQSPGIGPW GQQRLHPSLM STDHDQYQAV VAAAAASQSG GYMKQQFLNL QQPMQSPQEH  480
CNLNPLLQQQ ILQQASQQQT VSAENQNIQT MLNSSAIQHQ LQQIQQMQQA HIDQKQKIQP  540
DQTYQVPTSS ALPSPTSLPS HLREKFGFSD PHVNPPTFTT SSSSDNMLES SFLQGSSKAV  600
DLSRFNQPAL NEQQQQQQQQ QAWKQKFMGS PSLSFGGSVL LNSPTSKDGS LENKIGPDGQ  660
NQSLFSPQVD SSSLLYNMVP NMTSNVADNN MSTIPSGSTY LQNPMYGCLD DSSGIFQNTG  720
ENDPTSRTFV KVYKSGSVGR SLDITRFSNY AELREELGQM FGIRGQLDDP DRSGWQLVFV  780
DRENDVLLLG DDPWESFVNS VWYIKILSPE DVHKLGKQGN DPRYLS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1603037147388Auxin response factor 5
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).
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).
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00033PBMTransfer from AT5G37020Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapBrast09G253300.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0712980.0AB071298.1 Oryza sativa OsARF8 mRNA for auxin response factor 8, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_014751484.10.0auxin response factor 12 isoform X1
SwissprotQ0J9510.0ARFL_ORYSJ; Auxin response factor 12
SwissprotQ258Y50.0ARFL_ORYSI; Auxin response factor 12
TrEMBLA0A2K2CJD00.0A0A2K2CJD0_BRADI; Auxin response factor
STRINGBRADI5G25767.10.0(Brachypodium distachyon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP58503039
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.10.0auxin response factor 6
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. Qi Y, et al.
    OsARF12, a transcription activator on auxin response gene, regulates root elongation and affects iron accumulation in rice (Oryza sativa).
    New Phytol., 2012. 193(1): p. 109-20
    [PMID:21973088]
  3. Shen WJ,Ruan XL,Li XS,Zhao Q,Li HP
    RNA silencing suppressor Pns11 of rice gall dwarf virus induces virus-like symptoms in transgenic rice.
    Arch. Virol., 2012. 157(8): p. 1531-9
    [PMID:22592958]
  4. Wang S, et al.
    Auxin response factor (OsARF12), a novel regulator for phosphate homeostasis in rice (Oryza sativa).
    New Phytol., 2014. 201(1): p. 91-103
    [PMID:24111723]
  5. Fan J, et al.
    Infection of Ustilaginoidea virens intercepts rice seed formation but activates grain-filling-related genes.
    J Integr Plant Biol, 2015. 57(6): p. 577-90
    [PMID:25319482]