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 ONIVA06G28270.1
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: 720aa    MW: 78402.2 Da    PI: 8.0448
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ONIVA06G28270.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.94.6e-24147248199
                      EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                      f k+lt+sd+++ g +++p+ +ae++         ++ +  t+  +d +g +W++++iyr++++r++lt+GW+ Fv++++L +gD++vF+  ++
  ONIVA06G28270.1 147 FAKTLTQSDANNGGGFSVPRYCAETIfprldysADPPVQ--TVLAKDVHGVVWKFRHIYRGTPRRHLLTTGWSTFVNQKKLVAGDSIVFM--RT 236
                      89****************************996555555..8999*********************************************..45 PP

                      SEE..EEEEE-S CS
               B3  88 sefelvvkvfrk 99 
                      +++ l+v+++r+
  ONIVA06G28270.1 237 ENGDLCVGIRRA 248
                      88999****997 PP
2Auxin_resp112.83.2e-37312395183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                      aa+ a ++++FevvY+Prast+eF+vk+  v++a+++++ +GmRfkmafetedss++++ +Gtv++v+ +dp+rWpnS+Wr+L+
  ONIVA06G28270.1 312 AANLAVSGQPFEVVYYPRASTPEFCVKAGAVRAAMRTQWFAGMRFKMAFETEDSSRISWfMGTVSAVQVADPIRWPNSPWRLLQ 395
                      688999****************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.0E-37138250IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.23E-28143249IPR015300DNA-binding pseudobarrel domain
CDDcd100171.00E-20146247No hitNo description
PROSITE profilePS5086312.999147249IPR003340B3 DNA binding domain
SMARTSM010193.4E-21147249IPR003340B3 DNA binding domain
PfamPF023622.5E-22147248IPR003340B3 DNA binding domain
PfamPF065073.3E-32312395IPR010525Auxin response factor
PROSITE profilePS5174524.237634717IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007389Biological Processpattern specification process
GO:0009734Biological Processauxin-activated signaling pathway
GO:0048829Biological Processroot cap development
GO:0051301Biological Processcell division
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 720 aa     Download sequence    Send to blast
MERGRLHAFV YLYFPNKREM ITFVDSAAKE RERESDKCLD PQLWHACAGG MVQMPPVSSK  60
VYYFPQGHAE HAQGHGPVEF PGGRVPALVL CRVAGVRFMA DPDTDEVFAK IRLVPVRANE  120
QGYAGDADDG IGAAAAAAAQ EEKPASFAKT LTQSDANNGG GFSVPRYCAE TIFPRLDYSA  180
DPPVQTVLAK DVHGVVWKFR HIYRGTPRRH LLTTGWSTFV NQKKLVAGDS IVFMRTENGD  240
LCVGIRRAKK GGVGGPEFLP PPPPPPPPTP AAGGNYGGFS MFLRGDDDGN KMAAAARGKV  300
RARVRPEEVV EAANLAVSGQ PFEVVYYPRA STPEFCVKAG AVRAAMRTQW FAGMRFKMAF  360
ETEDSSRISW FMGTVSAVQV ADPIRWPNSP WRLLQVSWDE PDLLQNVKRV SPWLVELVSN  420
MPAIHLAPFS PPRKKLCVPL YPELPIDGQF PTPMFHGNPL ARGVGPMCYF PDGTPAGIQG  480
ARHAQFGISL SDLHLNKLQS SLSPHGLHQL DHGMQPRIAA GLIIGHPAAR DDISCLLTIG  540
SPQNNKKSDA KKAPAQLMLF GKPILTEQQI SLGDAASVAV KKSSSDGNAE NTVNKSNSDV  600
SSPRSNQNGT TDNLSCGGVP LCQDNKVLDV ALETGHCKVF MQSEDVGRTL DLSVVGSYEE  660
LYRRLADMFS IEKAELMSHV FYRDAAGALK HTGDEPFSEF TKTARRLNIL TDTSGDNLAR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A8e-783941651388Auxin response factor 5
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).
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00461DAPTransfer from AT4G30080Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1003220.0AK100322.1 Oryza sativa Japonica Group cDNA clone:J023079H12, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015644137.10.0auxin response factor 18
RefseqXP_015644138.10.0auxin response factor 18
SwissprotQ653H70.0ARFR_ORYSJ; Auxin response factor 18
TrEMBLA0A0E0HUN90.0A0A0E0HUN9_ORYNI; Auxin response factor
STRINGONIVA06G28270.10.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP51637152
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G30080.10.0auxin 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]
  2. Huang J,Li Z,Zhao D
    Deregulation of the OsmiR160 Target Gene OsARF18 Causes Growth and Developmental Defects with an Alteration of Auxin Signaling in Rice.
    Sci Rep, 2016. 6: p. 29938
    [PMID:27444058]