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_Os08g40900.2
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: 1056aa    MW: 117658 Da    PI: 6.9419
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os08g40900.2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B370.42.4e-2271172199
                       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_Os08g40900.2  71 FCKTLTASDTSTHGGFSVPRRAAERIfprldfsM-QPPA-QELQARDLHDNVWTFRHIYRGQPKRHLLTTGWSLFVSGKRLLAGDSVLFI--R 159
                       99*****************************954.4444.49************************************************..4 PP

                       SSEE..EEEEE-S CS
                B3  87 rsefelvvkvfrk 99 
                       + +++l+++++r+
  LOC_Os08g40900.2 160 DAKQQLLLGIRRA 172
                       5677789999997 PP
2Auxin_resp117.31.3e-38197280183
        Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                       aahaa+++s F+++YnPrastseFv++++k++ka++ +++s+GmRf+m+fete+s +rr++Gt++g+sdldpvrW+ S+Wr+++
  LOC_Os08g40900.2 197 AAHAAANNSQFTIYYNPRASTSEFVIPFAKYQKAVYgNQLSLGMRFRMMFETEESGTRRYMGTITGISDLDPVRWKTSHWRNIQ 280
                       79**********************************9********************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.58E-4261200IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.108.6E-4064186IPR015300DNA-binding pseudobarrel domain
CDDcd100171.42E-1870160No hitNo description
PROSITE profilePS5086311.64671173IPR003340B3 DNA binding domain
SMARTSM010191.5E-2071173IPR003340B3 DNA binding domain
PfamPF023621.6E-2071172IPR003340B3 DNA binding domain
PfamPF065074.8E-33197280IPR010525Auxin response factor
PfamPF023094.2E-109271022IPR033389AUX/IAA domain
PROSITE profilePS5174526.7759371021IPR000270PB1 domain
SuperFamilySSF542774.22E-79491016No 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: 1056 aa     Download sequence    Send to blast
MRKDADAQIP SYPNLPSKLI CILHSVTMLA DPDTDEVYAR MTLQPVSNCD KETLLASELA  60
LKQTRPQTEF FCKTLTASDT STHGGFSVPR RAAERIFPRL DFSMQPPAQE LQARDLHDNV  120
WTFRHIYRGQ PKRHLLTTGW SLFVSGKRLL AGDSVLFIRD AKQQLLLGIR RANRQPTNLS  180
SSVLSSDSMH IGILAAAAHA AANNSQFTIY YNPRASTSEF VIPFAKYQKA VYGNQLSLGM  240
RFRMMFETEE SGTRRYMGTI TGISDLDPVR WKTSHWRNIQ VAWDEAAPTE RRTRVSLWEI  300
EPIIAPFFIY PSPLFTAKRP RLPGMTDDET EMDGLLKRAM PWVGEEICKK DLNIQNSVVP  360
GLNLAQWMNM QHSSSLPGTV VQPELLNSLS GKPVQNLAAA DLSRQISFHP QFLQQNNIQF  420
NTALVPQQNQ QTEQLAKVIP TPNQLGSVII PQKVVQDCNS EQRQHVVTQP VQGSQPNINI  480
PQPQLVVQAQ LQQPQVILQA QLQQPQVVVQ AQLQQTQPSV QSHTVLQGGL QQIQLLQQQQ  540
PHVQHQQIPQ QLHHQQQQTQ QLQPVQQVQQ SVQEHQQIKI QPVHVSMDAS MNTQVADHQM  600
KLQLLKALQP QQPLISEQQK MLLDLQQQVI NSQSAPQQCV QVTNQAISLH NSNTIQYPTQ  660
QKVQSHQVQD LTGNVIPNSK SDIATSMGAS SLHVAGGRQL LKTDDVPSTS TSPSTNSNPV  720
LLQSIPSSSK NQSLTTAGKT SQSSVVLGPT IEQDTKPYQN VKQTVMIPKT TEQRPATGQD  780
CINNNPQMDY LDTSSSATSV CLSQADGSLQ QNFPPSSFHQ HHLLKDTVPD SEFEVTDPRN  840
NLLFGVNIDG QLGLPLNADL LANDIGTDKY MDQLPGNGIS NFISSKDSQQ ELSSSMISHS  900
FGVADMAFNS IDSAINDTPF LNRNSRSAAG PAHQRMRTYT KVHKRGAVGR SIDINRYSGY  960
DELKHDVARM FGIEGQLGDQ NRVGWKLVYE DHEKDVLLVG DDPWEDFVKC VRCIRILSPQ  1020
EEMQMRLVGD FGDSFLPNQA CSSSDGGHPW RITGD*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-139230189388Auxin 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_Os08g40900.2
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
TrEMBLA0A0E0IEP30.0A0A0E0IEP3_ORYNI; Auxin response factor
STRINGONIVA08G23730.10.0(Oryza nivara)
STRINGOBART08G20780.10.0(Oryza barthii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G19220.11e-180auxin 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]