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 Bradi5g25767.1.p
Common NameBRADI_5g25767, LOC100842100
Organism
Brachypodium distachyon
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: 837aa    MW: 93336.5 Da    PI: 6.3318
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bradi5g25767.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.94e-23142243199
                       EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                       f+k+lt sd++++g +++p++ ae+        ++++++  +l+ +d +  +W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F   +
  Bradi5g25767.1.p 142 FCKTLTASDTSTHGGFSVPRRAAERVfppldftQQPPAQ--ELIARDIHDVEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI--W 230
                       99***********************9*****86555544..8************************************************..8 PP

                       SSEE..EEEEE-S CS
                B3  87 rsefelvvkvfrk 99 
                       +++ +l+++++r+
  Bradi5g25767.1.p 231 NEKNQLWLGIRRA 243
                       999999*****97 PP
2Auxin_resp110.41.9e-36268351183
        Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                       aahaast+s F+++YnPra++seFv++++k+ ka+  +++svGmRf+m fete+ss rr++Gt++ vsd+dpvrW  S Wrs+k
  Bradi5g25767.1.p 268 AAHAASTNSRFTIFYNPRACPSEFVIPLSKYIKAVFhTRISVGMRFRMLFETEESSVRRYMGTITEVSDADPVRWASSYWRSVK 351
                       79*******************************986599******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019367.98E-48127271IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.108.6E-41134257IPR015300DNA-binding pseudobarrel domain
CDDcd100171.91E-21141242No hitNo description
PfamPF023621.7E-21142243IPR003340B3 DNA binding domain
PROSITE profilePS5086312.083142244IPR003340B3 DNA binding domain
SMARTSM010197.6E-24142244IPR003340B3 DNA binding domain
PfamPF065071.2E-31268351IPR010525Auxin response factor
PfamPF023091.6E-7731824IPR033389AUX/IAA domain
SuperFamilySSF542772.09E-7732812No hitNo description
PROSITE profilePS5174524.037737821IPR000270PB1 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:0009908Biological Processflower development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 837 aa     Download sequence    Send to blast
MSSSSGASVG QQQPPPPLPA PPPEEGACWL EKKNLNSELW HACAGPLVCL PTVGTRVVYF  60
PQGHSEQVAA STNKEVEGHI PNYPNLPPQL ICQLHDVTMH ADVETDEVYA QMTLQPLNPQ  120
EQNDAYLPAE MGIMSKQPTN YFCKTLTASD TSTHGGFSVP RRAAERVFPP LDFTQQPPAQ  180
ELIARDIHDV EWKFRHIFRG QPKRHLLTTG WSVFVSAKRL VAGDSVLFIW NEKNQLWLGI  240
RRASRTQTVM PSSVLSSDSM HIGLLAAAAH AASTNSRFTI FYNPRACPSE FVIPLSKYIK  300
AVFHTRISVG MRFRMLFETE ESSVRRYMGT ITEVSDADPV RWASSYWRSV KVGWDESTAG  360
ERPPRVSLWE IEPLTTFPMY PSLFPLRVKH PWYSGVAGLH DDSNALMWLR GVAGDGGYQS  420
LNFQSPGIGP WGQQRLHPSL MSTDHDQYQA VVAAAAASQS GGYMKQQFLN LQQPMQSPQE  480
HCNLNPLLQQ QILQQASQQQ TVSAENQNIQ TMLNSSAIQH QLQQIQQMQQ AHIDQKQKIQ  540
PDQTYQVPTS SALPSPTSLP SHLREKFGFS DPHVNSPTFT TSSSSDNMLE SSFLQGSSKA  600
VDLSRFNQPA LNEQQQQHQQ QQQQQQQQQQ QAWKQKFMGS SSLSFGGSVL LNSPTGKDGS  660
LENKIGPDGQ NQSLFSPQVD SSSLLYNMVP NMTSNVVDNN MSTIPSGSTY LQNPMYGCLD  720
DSSGIFQNTG ENDPTSRTFV KVYKSGSVGR SLDITRFSNY AELREELGQM FGIRGQLDDP  780
DRSGWQLVFV 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-1603137247388Auxin 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).
Cis-element ? help Back to Top
SourceLink
PlantRegMapBradi5g25767.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
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
TrEMBLA0A2K2CJD00.0A0A2K2CJD0_BRADI; Auxin response factor
STRINGBRADI5G25767.10.0(Brachypodium distachyon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP58503039
Representative plantOGRP8561456
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]