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_Os06g46410.2
Common NameARF17, B1153E06.26, LOC4341841, Os06g0677800, P0710B08.20
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: 851aa    MW: 94804.4 Da    PI: 6.2744
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os06g46410.2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B376.82.3e-2467168199
                       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++g++W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F   +
  LOC_Os06g46410.2  67 FCKTLTASDTSTHGGFSVPRRAAEKVfppldftQQPPAQ--ELIAKDLHGNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI--W 155
                       99*****************************86555544..8************************************************..7 PP

                       SSEE..EEEEE-S CS
                B3  87 rsefelvvkvfrk 99 
                       +++ +l+++++r+
  LOC_Os06g46410.2 156 NDNNQLLLGIRRA 168
                       777778***9997 PP
2Auxin_resp118.26.9e-39193276183
        Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                       aahaast+s F+++YnPras+seFv++++k++ka++ +++svGmRf+m fete+ss rr++Gt++g+sdld  rWpnS+Wrs+k
  LOC_Os06g46410.2 193 AAHAASTNSRFTIFYNPRASPSEFVIPLSKYVKAVYhTRISVGMRFRMLFETEESSVRRYMGTITGISDLDAARWPNSHWRSVK 276
                       79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.22E-4852196IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.4E-4358182IPR015300DNA-binding pseudobarrel domain
CDDcd100171.58E-2266167No hitNo description
SMARTSM010191.8E-2567169IPR003340B3 DNA binding domain
PfamPF023627.5E-2367168IPR003340B3 DNA binding domain
PROSITE profilePS5086313.23967169IPR003340B3 DNA binding domain
PfamPF065073.9E-34193276IPR010525Auxin response factor
SuperFamilySSF542772.03E-7716795No hitNo description
PfamPF023092.3E-8716804IPR033389AUX/IAA domain
PROSITE profilePS5174523.1719803IPR000270PB1 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
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009030anatomycarpel
PO:0007130developmental stagesporophyte reproductive stage
PO:0007606developmental stagegynoecium development stage
Sequence ? help Back to Top
Protein Sequence    Length: 851 aa     Download sequence    Send to blast
MESQIPNYPN LPPQLICQLH NVTMHADAET DEVYAQMTLQ PLSPQELKDP YLPAELGSAN  60
KQPTNYFCKT LTASDTSTHG GFSVPRRAAE KVFPPLDFTQ QPPAQELIAK DLHGNEWKFR  120
HIFRGQPKRH LLTTGWSVFV SAKRLVAGDS VLFIWNDNNQ LLLGIRRANR PQTVMPSSVL  180
SSDSMHIGLL AAAAHAASTN SRFTIFYNPR ASPSEFVIPL SKYVKAVYHT RISVGMRFRM  240
LFETEESSVR RYMGTITGIS DLDAARWPNS HWRSVKVGWD ESTAGERQPR VSLWEIEPLT  300
TFPMYPSPFP LRLKRPWPTG LPSLHGGKDD DLTSSLMWLR DSANPGFQSL NFGGLGMNPW  360
MQPRFDASLL GLQPDMYQTI AATAFQDPTK QVSPTILQFQ QPQNIGGRAN TLLPSQILQQ  420
VQPQFQQQQY LQNINETTIQ GHAQSEFLQQ QLQRCQSFTE QKPQLQTQQQ QQESQQQQQQ  480
QSQCMQVPQH QQMQQQKNMT NYQSVPNALS PFSQLSSPSQ SSPMTLQTVL PFSQPQSYPD  540
TSMSSLSPSN TSTMHNALRP FSSEAPSHLS MPRPTAVPVP DPWSSKRVAV ESLLPSRPQV  600
TSQMEQLDST APSIPQSSAL APLPGRGCLV DQDGNSDPQN HLLFGVNIDS QSLLMQGGIP  660
SLQGENDSTA IPYSTSNFLS PSQNDFPLDQ TLSSADCLDE SGYVPCSQNS DQVINRPPAT  720
FVKVYKSGTY GRSLDITRFS SYHELRRELG RLFGLEGQLE NPLRSGWQLV FVDREDDVLL  780
VGDDPWQEFV NSVSCIKILS PQEVQQMGKP FELLSSAPGK RLGSSCDDYV SRQESRSLST  840
GIASVGSVEF *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-135329794388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.981260.0callus| flower| leaf| panicle| seed| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329884890.0
Expression AtlasQ653U3-
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_Os06g46410.2
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs06g46410
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1032800.0AK103280.1 Oryza sativa Japonica Group cDNA clone:J033124L19, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015643843.10.0auxin response factor 17
SwissprotQ653U30.0ARFQ_ORYSJ; Auxin response factor 17
TrEMBLA0A0E0AD970.0A0A0E0AD97_9ORYZ; Auxin response factor
TrEMBLA0A0E0Q1M20.0A0A0E0Q1M2_ORYRU; Auxin response factor
STRINGOGLUM06G26000.10.0(Oryza glumipatula)
STRINGORUFI06G26570.10.0(Oryza rufipogon)
STRINGOS06T0677800-010.0(Oryza sativa)
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. 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]