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 OMERI06G25370.1
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: 735aa    MW: 79932.9 Da    PI: 7.3862
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OMERI06G25370.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.84.8e-24128229199
                      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+  ++
  OMERI06G25370.1 128 FAKTLTQSDANNGGGFSVPRYCAETIfprldysADPPVQ--TVLAKDVHGVVWKFRHIYRGTPRRHLLTTGWSTFVNQKKLVAGDSIVFM--RT 217
                      89****************************996555555..8999*********************************************..45 PP

                      SEE..EEEEE-S CS
               B3  88 sefelvvkvfrk 99 
                      +++ l+v+++r+
  OMERI06G25370.1 218 ENGDLCVGIRRA 229
                      88999****997 PP
2Auxin_resp112.83.3e-37290373183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                      aa+ a ++++FevvY+Prast+eF+vk+  v++a+++++ +GmRfkmafetedss++++ +Gtv++v+ +dp+rWpnS+Wr+L+
  OMERI06G25370.1 290 AANLAVSGQPFEVVYYPRASTPEFCVKAGAVRAAMRTQWFAGMRFKMAFETEDSSRISWfMGTVSAVQVADPIRWPNSPWRLLQ 373
                      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-37119231IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.27E-28124230IPR015300DNA-binding pseudobarrel domain
CDDcd100171.05E-20127228No hitNo description
PROSITE profilePS5086312.999128230IPR003340B3 DNA binding domain
PfamPF023622.6E-22128229IPR003340B3 DNA binding domain
SMARTSM010193.4E-21128230IPR003340B3 DNA binding domain
PfamPF065073.4E-32290373IPR010525Auxin response factor
PROSITE profilePS5174524.401612695IPR000270PB1 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: 735 aa     Download sequence    Send to blast
MITFVDSAAK ERERDSDKCL DPQLWHACAG GMVQMPPVNS KVYYFPQGHA EHAQGHGPVE  60
FPGGRVPALV LCRVAGVRFM ADPDTDEVFA KIRLVPVRAN EQGYAGDADD GIGAAAAAAA  120
QEEKPASFAK TLTQSDANNG GGFSVPRYCA ETIFPRLDYS ADPPVQTVLA KDVHGVVWKF  180
RHIYRGTPRR HLLTTGWSTF VNQKKLVAGD SIVFMRTENG DLCVGIRRAK KGGVGGPEFL  240
PPPPPPTPAA GGNYGGFSMF LRGDDDGNKM AAAARGKVRA RVRPEEVVEA ANLAVSGQPF  300
EVVYYPRAST PEFCVKAGAV RAAMRTQWFA GMRFKMAFET EDSSRISWFM GTVSAVQVAD  360
PIRWPNSPWR LLQVSWDEPD LLQNVKRVSP WLVELVSNMP AIHLAPFSPP RKKLCVPLYP  420
ELPIDGQFPT PMFHGNPLAR GVGPMCYFPD GTPAGIQGAR HAQFGISLSD LHLNKLQSSL  480
SPHGLHQLDH GMQPRIAAGL IIGHPAARDD ISCLLTIGSP QNNKKSDGKK APAQLMLFGK  540
PILTEQQISL GDAASVAVKK SSSDGNAENT VNKSNSDVSS PRSNQNGTTD NLTCGGVPLC  600
QDNKVLDVGL ETGHCKVFMQ SEDVGRTLDL SVVGSYEELY RRLADMFGIE KAELMSHVFY  660
RDAAGALKHT GDEPFSEFTK TARRLNILTD TSGDNLASTS SYQRIEELES ERPKICVSLN  720
LELKFCKIVL YDSTL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A3e-782039451388Auxin 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
GenBankAB0712990.0AB071299.1 Oryza sativa OsARF10 mRNA for auxin response factor 10, partial cds.
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
TrEMBLA0A0E0E5H60.0A0A0E0E5H6_9ORYZ; Auxin response factor
STRINGOMERI06G23680.10.0(Oryza meridionalis)
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]