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 ONIVA04G29840.1
Organism
Oryza nivara
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: 523aa    MW: 56748.1 Da    PI: 5.9029
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ONIVA04G29840.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B380.61.6e-25123227299
                      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  
  ONIVA04G29840.1 123 AKQLTQSDANNGGGFSVPRLCADHIfpalnldDDPPVQS--LTMRDLQGDSWEFRHIYRGTPRRHLLTTGWSKFVNAKQLVAGDTVVFMWCGAp 214
                      69*******************9777*****976676675..************************************************88655 PP

                      .SEE..EEEEE-S CS
               B3  88 .sefelvvkvfrk 99 
                        e++l+v+v+r+
  ONIVA04G29840.1 215 aPERKLLVGVRRA 227
                      7999999999986 PP
2Auxin_resp45.53.2e-16250325174
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkma.fetedsserrl.sGtvvgvsdldpvrW 74 
                      a++ a+++ +F+v+Y+Pr ++ eFvv++ +v k l++++  Gm+++ + +e ed ++  +  Gt + +++ +  r 
  ONIVA04G29840.1 250 AVRLAAEQAAFRVTYYPRHGAGEFVVPRVEVDKGLTTPWRCGMQVRAQvMEAEDTRRLAWlNGTLTNLRHQQIWRT 325
                      5778999***************************************9758***************99988666444 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019365.23E-27111231IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.1E-32114236IPR015300DNA-binding pseudobarrel domain
CDDcd100177.45E-20120226No hitNo description
PROSITE profilePS5086312.337122228IPR003340B3 DNA binding domain
SMARTSM010191.6E-17122228IPR003340B3 DNA binding domain
PfamPF023622.6E-22123227IPR003340B3 DNA binding domain
PfamPF065075.1E-12250330IPR010525Auxin 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: 523 aa     Download sequence    Send to blast
MARPPAATAP PPPPPPPPPP PIDRLVWLAC AAPLSRIPVV GTQVSYFPEG HAEQCPAPLP  60
DPLPSAHRFF LCTITAVDLS ADTTTGEPYA TISLLPLRHD APAPAPAAAE LAEAESQEFR  120
YYAKQLTQSD ANNGGGFSVP RLCADHIFPA LNLDDDPPVQ SLTMRDLQGD SWEFRHIYRG  180
TPRRHLLTTG WSKFVNAKQL VAGDTVVFMW CGAPAPERKL LVGVRRAARY SGESACNARG  240
RVQPQEVMEA VRLAAEQAAF RVTYYPRHGA GEFVVPRVEV DKGLTTPWRC GMQVRAQVME  300
AEDTRRLAWL NGTLTNLRHQ QIWRTLEVEW DASAASSSMK NRFVNPWQVQ PVDFPPLPMG  360
LKISNNNISA PVCNGDSLLV PPILMHPQPQ PPADIQGARH NNGHAYADIP SSSTPSMVRT  420
QQLFPRGLQI LVPHTDIVTP QNASPPDNPV NTPLSASDGM KTIQLFGVTI TSPVQGDTNG  480
AFASAQVNQV PEGVDDETAT EEASDTSLPD SLTNGHNQDG ARL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A5e-542435321356Auxin response factor 1
4ldy_B5e-542435321356Auxin 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
TrEMBLA0A0E0H8330.0A0A0E0H833_ORYNI; Auxin response factor
STRINGONIVA04G29840.10.0(Oryza nivara)
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
AT1G77850.17e-76auxin response factor 17
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]