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 OB04G20880.1
Common NameLOC102705067
Organism
Oryza brachyantha
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family ARF
Protein Properties Length: 673aa    MW: 74757.2 Da    PI: 5.998
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OB04G20880.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.46.7e-24127227198
                   EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE. CS
            B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefe 91 
                   f+k+lt sd++++g +++ +++aee+      ++++++ ++l+ +d++g +W +++i+r++++r++lt+GW+ Fv++++L +gD ++F   +++++e
  OB04G20880.1 127 FCKTLTASDTSTHGGFSVLRRHAEEClpqldmSQNPPC-QELVAKDLHGTEWHFRHIFRGQPRRHLLTTGWSVFVSSKRLVAGDAFIFL--RDENGE 220
                   99*****************************7556666.59************************************************..568999 PP

                   .EEEEE- CS
            B3  92 lvvkvfr 98 
                   l+v+v+r
  OB04G20880.1 221 LRVGVRR 227
                   9****97 PP
2Auxin_resp101.98.3e-34253338183
    Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsd...ldpvrWpnSkWrsLk 83 
                   a+ha+st++ F+v+Y+Pr+s+seFvv+v+k+++a k+++svGmRfkm+fe+++++err+sGt++g+     ++++ W +S W+sLk
  OB04G20880.1 253 ASHAISTRTLFSVFYKPRTSRSEFVVSVNKYLEAKKQNLSVGMRFKMRFEGDEAPERRFSGTIIGIGSvpaMSTSPWADSDWKSLK 338
                   789*************************************************************986522278889********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.31E-44116256IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.1E-41124242IPR015300DNA-binding pseudobarrel domain
CDDcd100178.47E-22125227No hitNo description
SMARTSM010197.7E-22127229IPR003340B3 DNA binding domain
PROSITE profilePS5086311.829127229IPR003340B3 DNA binding domain
PfamPF023621.2E-21127227IPR003340B3 DNA binding domain
PfamPF065079.1E-32253338IPR010525Auxin response factor
PROSITE profilePS5174526.956547639IPR000270PB1 domain
SuperFamilySSF542772.26E-11547625No hitNo description
PfamPF023094.2E-8595638IPR033389AUX/IAA 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: 673 aa     Download sequence    Send to blast
MAAAMEMAAN PGGGSGSCSD ALFRELWHAC AGPLVTVPKR GERVYYFPQG HMEQLEASTN  60
QQLDQYLPMF NLPSKILCSV VNVELRAETD SDEVYAQIML HPEADQSELT SPDPEPQELE  120
KCTAHSFCKT LTASDTSTHG GFSVLRRHAE ECLPQLDMSQ NPPCQELVAK DLHGTEWHFR  180
HIFRGQPRRH LLTTGWSVFV SSKRLVAGDA FIFLRDENGE LRVGVRRLMR QVNNMPSSVI  240
SSHSMHLGVL ATASHAISTR TLFSVFYKPR TSRSEFVVSV NKYLEAKKQN LSVGMRFKMR  300
FEGDEAPERR FSGTIIGIGS VPAMSTSPWA DSDWKSLKVQ WDEPSSIVRP DRISPWELEP  360
LDTTNPQPPQ PPLRNKRARP PASPSVVSEL LPSFGLWKSP SEAAQTLSFS EPHRTREIFP  420
SIPASIFSAS SNAEFNSKKE PSMLNNQFYW SARDSRADSF AASTNKVRVE RKQEPTTVGC  480
RLFGIEISSA VELLPAATVS GVGYDQTVVS GDVDSDQISQ PSNGNKSDAP VTSSEHSPLE  540
SLSRQVRSCT KVIMQGMAVG RAVDLTKLGN YGDLRRKCEE MFDIQGELCP SLKRWQIVYT  600
DDENDMMLVG DDPWDEFCSM VKRIYIYSYE EANLLAPKSK LPNIGDTIQF SGVNSSPESV  660
GLDSHASVTN KDC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A0.013631357Auxin response factor 1
4ldw_A0.013631357Auxin response factor 1
4ldw_B0.013631357Auxin 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
PlantRegMapOB04G20880.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0649250.0AK064925.1 Oryza sativa Japonica Group cDNA clone:J013000N16, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006653437.10.0PREDICTED: auxin response factor 9
RefseqXP_015692249.10.0PREDICTED: auxin response factor 9
SwissprotQ0JCZ40.0ARFI_ORYSJ; Auxin response factor 9
TrEMBLJ3LY630.0J3LY63_ORYBR; Auxin response factor
STRINGOB04G20880.10.0(Oryza brachyantha)
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
AT1G59750.40.0auxin response factor 1
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]