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 LOC_Os08g40900.1
Common NameARF21, ARF7B, LOC4346065, OJ1003_A09.14, Os08g0520500, P0689E12.38
Organism
Oryza sativa subsp. japonica
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; Oryza sativa
Family ARF
Protein Properties Length: 1117aa    MW: 123716 Da    PI: 6.7756
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os08g40900.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B370.32.6e-22132233199
                       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++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F   +
  LOC_Os08g40900.1 132 FCKTLTASDTSTHGGFSVPRRAAERIfprldfsM-QPPA-QELQARDLHDNVWTFRHIYRGQPKRHLLTTGWSLFVSGKRLLAGDSVLFI--R 220
                       99*****************************954.4444.49************************************************..4 PP

                       SSEE..EEEEE-S CS
                B3  87 rsefelvvkvfrk 99 
                       + +++l+++++r+
  LOC_Os08g40900.1 221 DAKQQLLLGIRRA 233
                       5677789999997 PP
2Auxin_resp117.21.4e-38258341183
        Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                       aahaa+++s F+++YnPrastseFv++++k++ka++ +++s+GmRf+m+fete+s +rr++Gt++g+sdldpvrW+ S+Wr+++
  LOC_Os08g40900.1 258 AAHAAANNSQFTIYYNPRASTSEFVIPFAKYQKAVYgNQLSLGMRFRMMFETEESGTRRYMGTITGISDLDPVRWKTSHWRNIQ 341
                       79**********************************9********************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.84E-42122261IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.109.3E-40125247IPR015300DNA-binding pseudobarrel domain
CDDcd100171.54E-18131221No hitNo description
PfamPF023621.7E-20132233IPR003340B3 DNA binding domain
SMARTSM010191.5E-20132234IPR003340B3 DNA binding domain
PROSITE profilePS5086311.646132234IPR003340B3 DNA binding domain
PfamPF065075.1E-33258341IPR010525Auxin response factor
PfamPF023094.6E-109881083IPR033389AUX/IAA domain
PROSITE profilePS5174526.7759981082IPR000270PB1 domain
SuperFamilySSF542774.61E-710101077No hitNo description
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
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009047anatomystem
PO:0007010developmental stagewhole plant fruit ripening stage
PO:0007130developmental stagesporophyte reproductive stage
Sequence ? help Back to Top
Protein Sequence    Length: 1117 aa     Download sequence    Send to blast
MASSGGGGGG GEEGEGRGAT KVNQELWYAC AGPLVSLPPQ GSLIVYFPQG HSEQVAASMR  60
KDADAQIPSY PNLPSKLICI LHSVTMLADP DTDEVYARMT LQPVSNVTQC DKETLLASEL  120
ALKQTRPQTE FFCKTLTASD TSTHGGFSVP RRAAERIFPR LDFSMQPPAQ ELQARDLHDN  180
VWTFRHIYRG QPKRHLLTTG WSLFVSGKRL LAGDSVLFIR DAKQQLLLGI RRANRQPTNL  240
SSSVLSSDSM HIGILAAAAH AAANNSQFTI YYNPRASTSE FVIPFAKYQK AVYGNQLSLG  300
MRFRMMFETE ESGTRRYMGT ITGISDLDPV RWKTSHWRNI QVAWDEAAPT ERRTRVSLWE  360
IEPIIAPFFI YPSPLFTAKR PRLPGMTDDE TEMDGLLKRA MPWVGEEICK KDLNIQNSVV  420
PGLNLAQWMN MQHSSSLPGT VVQPELLNSL SGKPVQNLAA ADLSRQISFH PQFLQQNNIQ  480
FNTALVPQQN QQTEQLAKVI PTPNQLGSVI IPQKVVQDCN SEQRQHVVTQ PVQGSQPNIN  540
IPQPQLVVQA QLQQPQVILQ AQLQQPQVVV QAQLQQTQPS VQSHTVLQGG LQQIQLLQQQ  600
QPHVQHQQIP QQLHHQQQQT QQLQPVQQVQ QSVQEHQQIK IQPVHVSMDA SMNTQVADHQ  660
MKLQLLKALQ PQQPLISEQQ KMLLDLQQQV INSQSAPQQC VQVTNQAISL HNSNTIQYPT  720
QQKVQSHQVQ DLTGNVIPNS KSDIATSMGA SSLHVAGGRQ LLKTDDVPST STSPSTNSNP  780
VLLQSIPSSS KNQSLTTAGK TSQSSVVLGP TIEQDTKPYQ NVKQTVMIPK TTEQRPATGQ  840
DCINNNPQMD YLDTSSSATS VCLSQADGSL QQNFPPSSFH QHHLLKDTVP DSEFEVTDPR  900
NNLLFGVNID GQLGLPLNAD LLANDIGTDK YMDQLPGNGI SNFISSKDSQ QELSSSMISH  960
SFGVADMAFN SIDSAINDTP FLNRNSRSAA GPAHQRMRTY TKVHKRGAVG RSIDINRYSG  1020
YDELKHDVAR MFGIEGQLGD QNRVGWKLVY EDHEKDVLLV GDDPWEDFVK CVRCIRILSP  1080
QEEMQMRLVG DFGDSFLPNQ ACSSSDGGHP WRITGD*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1612236251388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.482180.0leaf
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO193520460.0
Expression AtlasQ6YZW0-
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, culms, leaves and young panicles. {ECO:0000269|PubMed:17408882}.
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
PlantRegMapLOC_Os08g40900.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin under dark condition. Down-regulated by auxin under light condition. {ECO:0000269|PubMed:17408882}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs08g40900
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0712970.0AB071297.1 Oryza sativa OsARF7b mRNA for auxin response factor 7b, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015649755.10.0auxin response factor 21
SwissprotQ6YZW00.0ARFU_ORYSJ; Auxin response factor 21
TrEMBLA0A0D3H2870.0A0A0D3H287_9ORYZ; Auxin response factor
STRINGOBART08G20780.10.0(Oryza barthii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP140935106
Representative plantOGRP41931125
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G19220.10.0auxin response factor 19
Publications ? help Back to Top
  1. Sato Y, et al.
    Auxin response factor family in rice.
    Genes Genet. Syst., 2001. 76(6): p. 373-80
    [PMID:11922106]
  2. 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]
  3. Wang D, et al.
    Genome-wide analysis of the auxin response factors (ARF) gene family in rice (Oryza sativa).
    Gene, 2007. 394(1-2): p. 13-24
    [PMID:17408882]