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_Os02g04810.1
Common NameARF5, LOC4328265, OJ1679_B08.29, Os02g0141100, OsJ_005181
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: 1140aa    MW: 126471 Da    PI: 6.5467
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os02g04810.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B365.86.4e-21145246199
                       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+    +
  LOC_Os02g04810.1 145 FCKTLTASDTSTHGGFSVPRRAAEKIfppldfsM-QPPA-QELQARDIHDNVWTFRHIYRGQPKRHLLTTGWSLFVSGKRLFAGDSVIVV--R 233
                       99*****************************954.4444.49**********************************************99..5 PP

                       SSEE..EEEEE-S CS
                B3  87 rsefelvvkvfrk 99 
                       +++ +l+++++r+
  LOC_Os02g04810.1 234 DEKHQLLLGIRRA 246
                       5788889999997 PP
2Auxin_resp117.61.1e-38271354183
        Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                       aahaa+++s+F+++YnPras++eFv++++k++kal+ +++s+GmRf+m+fete+  +rr++Gt++g+sdldpvrW+nS+Wr+L+
  LOC_Os02g04810.1 271 AAHAAANSSPFTIFYNPRASPTEFVIPFAKYQKALYsNQISLGMRFRMMFETEELGTRRYMGTITGISDLDPVRWKNSQWRNLQ 354
                       79*********************************989********************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS512575129No hitNo description
SuperFamilySSF1019361.57E-41134274IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.1E-39137260IPR015300DNA-binding pseudobarrel domain
CDDcd100179.18E-18144245No hitNo description
PfamPF023621.1E-18145246IPR003340B3 DNA binding domain
SMARTSM010196.7E-21145247IPR003340B3 DNA binding domain
PROSITE profilePS5086310.912145247IPR003340B3 DNA binding domain
PfamPF065071.5E-33271354IPR010525Auxin response factor
PfamPF023094.0E-910031091IPR033389AUX/IAA domain
PROSITE profilePS5174529.25810061090IPR000270PB1 domain
SuperFamilySSF542773.83E-710241085No 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:0009049anatomyinflorescence
PO:0001083developmental stageinflorescence development stage
PO:0007006developmental stageIL.00 inflorescence just visible stage
Sequence ? help Back to Top
Protein Sequence    Length: 1140 aa     Download sequence    Send to blast
MKQQQTPASS AVTAAAAASS SATAAVAACE GERKAAAINS ELWHACAGPL VSLPPVGSLV  60
VYFPQGHSEQ VAASMQKDVD AHVPSYPNLP SKLICLLHGV NLHADPDTDE VYAQMTLQPV  120
NTYGKEALQI SELALKQARP QMEFFCKTLT ASDTSTHGGF SVPRRAAEKI FPPLDFSMQP  180
PAQELQARDI HDNVWTFRHI YRGQPKRHLL TTGWSLFVSG KRLFAGDSVI VVRDEKHQLL  240
LGIRRANRQP TNISSSVLSS DSMHIGVLAA AAHAAANSSP FTIFYNPRAS PTEFVIPFAK  300
YQKALYSNQI SLGMRFRMMF ETEELGTRRY MGTITGISDL DPVRWKNSQW RNLQVGWDES  360
AAGERRNRVS IWEIEPVAAP FFLCPQPFFG VKRPRQLDDE SEMENLFKRA MPWLGEEVCI  420
KDTQNQNSTA PGLSLVQWMN MNRQQSSSLA NTAAQSEYLQ ALGNPAMQNL AADELARQLY  480
VQNNLLQQNC IQFNSPKLPQ QMQTMNDLSK AAIPLNQLGA IINPQDQKQD AVNHQRQQNS  540
IQVIPLSQAQ SNLVQAQVIV QNQMQQQKPS PTQNPQRING QRLLLSHQQK DQNLQLQQQL  600
LLQQKQQLQQ QQQQQQQNQQ QLNKSLGQLV NLASQQSKLF DEELQLQILQ KLQQQSLMSQ  660
STSTLSQPPL IQEQQKLITD MQKQLSNSHS LAQQQMMPQQ EIKPSLQATP LLPTVQQEQQ  720
QKLLQKQVSL ADVSGVAFQP ISSTNVIPKT GGAMIISGAT QSVVTEEMPS CSTSPSTANG  780
NHFTQSTKNR HCINTERLPP STAPMLIPTS IDAVTATPLM TKELPKPNNN VKQSVVNSKL  840
PNVAPGPQNC INHALQTDNL ETSSSATSLC PSRTDGLVHQ GFPSSNFNQH QMFKDALPDV  900
EMEGVDPSNS GLFGINNDNL LGFPIETEDL LINALDSVKY QNHISTDVEN NYPMQKDALQ  960
EISTSMVSQS FGQSDMAFNS IDSAINDGAF LNKNSWPAAP LLQRMRTFTK VYKRGAVGRS  1020
IDIGRYSGYE ELKHALARMF GIEGQLEDRQ RIGWKLVYKD HEDDILLLGD DPWEEFVNCV  1080
RCIRILSPQE VQQMSLDGDL GSNVLPNQAC SSSDGVNGWR PRCDQNPGNP SIGPYDQFE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1663137545388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.214540.0callus| leaf| stem
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasQ6Z2W3
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).
Function -- GeneRIF ? help Back to Top
  1. OsIAA23-mediated auxin signaling is crucial to the identity of the quiescent center during postembryonic root development.
    [PMID: 21736653]
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os02g04810.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: 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
RiceGEOs02g04810
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0052940.0AP005294.3 Oryza sativa Japonica Group genomic DNA, chromosome 2, BAC clone:OJ1679_B08.
GenBankAP0149580.0AP014958.1 Oryza sativa Japonica Group DNA, chromosome 2, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015627049.10.0auxin response factor 5 isoform X1
SwissprotQ6Z2W30.0ARFE_ORYSJ; Auxin response factor 5
TrEMBLA0A0E0G1060.0A0A0E0G106_ORYNI; Auxin response factor
STRINGONIVA02G03290.10.0(Oryza nivara)
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. 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]
  2. Jun N, et al.
    OsIAA23-mediated auxin signaling defines postembryonic maintenance of QC in rice.
    Plant J., 2011. 68(3): p. 433-42
    [PMID:21736653]