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 Brast09G253300.2.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: 822aa    MW: 91557.5 Da    PI: 6.2867
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Brast09G253300.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.93.9e-23136237199
                         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  
  Brast09G253300.2.p 136 FCKTLTASDTSTHGGFSVPRRAAERVfppldftQQPPAQ--ELIARDIHDVEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI- 223
                         99***********************9*****86555544..8************************************************. PP

                         -SSSEE..EEEEE-S CS
                  B3  85 dgrsefelvvkvfrk 99 
                          ++++ +l+++++r+
  Brast09G253300.2.p 224 -WNEKNQLWLGIRRA 237
                         .8999999*****97 PP
2Auxin_resp110.41.8e-36262345183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                         aahaast+s F+++YnPra++seFv++++k+ ka+  +++svGmRf+m fete+ss rr++Gt++ vsd+dpvrW  S Wrs+k
  Brast09G253300.2.p 262 AAHAASTNSRFTIFYNPRACPSEFVIPLSKYIKAVFhTRISVGMRFRMLFETEESSVRRYMGTITEVSDADPVRWASSYWRSVK 345
                         79*******************************986599******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019367.72E-48121265IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.108.4E-41128251IPR015300DNA-binding pseudobarrel domain
CDDcd100171.84E-21135236No hitNo description
PfamPF023621.7E-21136237IPR003340B3 DNA binding domain
SMARTSM010197.6E-24136238IPR003340B3 DNA binding domain
PROSITE profilePS5086312.083136238IPR003340B3 DNA binding domain
PfamPF065071.2E-31262345IPR010525Auxin response factor
PfamPF023094.2E-5613809IPR033389AUX/IAA domain
SuperFamilySSF542772.03E-7717797No hitNo description
PROSITE profilePS5174524.037722806IPR000270PB1 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: 822 aa     Download sequence    Send to blast
MSSSSGASVG QQQQPPPPAA PPEEEKKNLN SELWHACAGP LVCLPTVGTR VVYFPQGHSE  60
QVAASTNKEV EGHIPNYPNL PPQLICQLHD VTMHADVETD EVYAQMTLQP LNPQEQNDAY  120
LPAEMGIMSK QPTNYFCKTL TASDTSTHGG FSVPRRAAER VFPPLDFTQQ PPAQELIARD  180
IHDVEWKFRH IFRGQPKRHL LTTGWSVFVS AKRLVAGDSV LFIWNEKNQL WLGIRRASRT  240
QTVMPSSVLS SDSMHIGLLA AAAHAASTNS RFTIFYNPRA CPSEFVIPLS KYIKAVFHTR  300
ISVGMRFRML FETEESSVRR YMGTITEVSD ADPVRWASSY WRSVKVGWDE STAGERPPRV  360
SLWEIEPLTT FPMYPSLFPL RVKHPWYSGV AGLHDDSNAL MWLRGVAGDG GYQSLNFQSP  420
GIGPWGQQRL HPSLMSTDHD QYQAVVAAAA ASQSGGYMKQ QFLNLQQPMQ SPQEHCNLNP  480
LLQQQILQQA SQQQTVSAEN QNIQTMLNSS AIQHQLQQIQ QMQQAHIDQK QKIQPDQTYQ  540
VPTSSALPSP TSLPSHLREK FGFSDPHVNP PTFTTSSSSD NMLESSFLQG SSKAVDLSRF  600
NQPALNEQQQ QQQQQQAWKQ KFMGSPSLSF GGSVLLNSPT SKDGSLENKI GPDGQNQSLF  660
SPQVDSSSLL YNMVPNMTSN VADNNMSTIP SGSTYLQNPM YGCLDDSSGI FQNTGENDPT  720
SRTFVKVYKS GSVGRSLDIT RFSNYAELRE ELGQMFGIRG QLDDPDRSGW QLVFVDREND  780
VLLLGDDPWE SFVNSVWYIK ILSPEDVHKL GKQGNDPRYL S*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1602536647388Auxin 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
PlantRegMapBrast09G253300.2.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
GenBankAK0714550.0AK071455.1 Oryza sativa Japonica Group cDNA clone:J023093B04, full insert sequence.
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)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.20.0auxin 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]