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 OMERI04G25770.1
Organism
Oryza meridionalis
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: 517aa    MW: 56289.6 Da    PI: 6.1499
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OMERI04G25770.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.81.2e-24117221299
                      EEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS. CS
               B3   2 fkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr. 87 
                       k+lt+sd+++ g +++p+ +a+++       + ++ +s  lt+ d++g sWe+++iyr++++r++lt+GW++Fv+a++L +gD+vvF+  g  
  OMERI04G25770.1 117 AKQLTQSDANNGGGFSVPRLCADHIfpalnldDDPPVQS--LTMGDLQGDSWEFRHIYRGTPRRHLLTTGWSKFVNAKQLVAGDTVVFMWCGAl 208
                      69*******************9777*****976676675..************************************************88766 PP

                      .SEE..EEEEE-S CS
               B3  88 .sefelvvkvfrk 99 
                        e++l+v+v+r+
  OMERI04G25770.1 209 aPERKLLVGVRRA 221
                      7899999999986 PP
2Auxin_resp45.63.1e-16244319174
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkma.fetedsserrl.sGtvvgvsdldpvrW 74 
                      a++ a+++ +F+v+Y+Pr ++ eFvv++ +v k l++++  Gm+++ + +e ed ++  +  Gt + +++ +  r 
  OMERI04G25770.1 244 AVRLAAEQAAFRVTYYPRHGAGEFVVPRVEVDKGLTTPWRCGMQVRAQvMEAEDTRRLAWlNGTLTNLRHQQIWRT 319
                      5778999***************************************9758***************99988666444 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.57E-26104226IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.8E-31111230IPR015300DNA-binding pseudobarrel domain
CDDcd100174.04E-18114220No hitNo description
PROSITE profilePS5086312.026116222IPR003340B3 DNA binding domain
SMARTSM010192.1E-15116222IPR003340B3 DNA binding domain
PfamPF023621.7E-21117221IPR003340B3 DNA binding domain
PfamPF065075.0E-12244324IPR010525Auxin response factor
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:0010208Biological Processpollen wall assembly
GO:0048830Biological Processadventitious root development
GO:0052543Biological Processcallose deposition in cell wall
GO:0005634Cellular Componentnucleus
GO:0000987Molecular Functioncore promoter proximal region sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 517 aa     Download sequence    Send to blast
MARPPAATAP PPPPPPPIDR LVWLACAAPL SRIPVVGTQV FYFPEGHAEQ CPAPLPDPLP  60
SAHRFFLCTI TAVHLSADTT TGEPYATISL LPLRHDAPAP APAELAEVES QEFRYYAKQL  120
TQSDANNGGG FSVPRLCADH IFPALNLDDD PPVQSLTMGD LQGDSWEFRH IYRGTPRRHL  180
LTTGWSKFVN AKQLVAGDTV VFMWCGALAP ERKLLVGVRR AARYSGESAC NARGRVQPQE  240
VMEAVRLAAE QAAFRVTYYP RHGAGEFVVP RVEVDKGLTT PWRCGMQVRA QVMEAEDTRR  300
LAWLNGTLTN LRHQQIWRTL EVEWDASAAS SSMKNRFVNP WQVQPVDFPP LPMGLKISSN  360
NISAPVCNGD SLLVPPKLMH PQPQPPADIQ GARHNNGHAY ADIPSSSTPS MVRSQQLFPR  420
DLQILVPHTD IVTPQNGSPP NNPVNTPLSA SDGMKTIQLF GVTITSPVQG DTNGAFASAQ  480
VNQVPEGVDD ETATEEASDT SLPDSLTNGH NQDGVRL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A6e-552034721356Auxin response factor 1
4ldy_B6e-552034721356Auxin 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).
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1094490.0AK109449.1 Oryza sativa Japonica Group cDNA clone:001-113-A09, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015634416.10.0auxin response factor 13
SwissprotQ7XSS90.0ARFM_ORYSJ; Auxin response factor 13
TrEMBLA0A0E0DKI10.0A0A0E0DKI1_9ORYZ; Auxin response factor
STRINGOBART04G30660.10.0(Oryza barthii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP113553137
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G30080.15e-77auxin response factor 16
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]