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 ONIVA01G11220.1
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: 708aa    MW: 78277.3 Da    PI: 5.5272
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ONIVA01G11220.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B368.11.2e-21131230197
                      EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                      f+k+ltpsd++++g +++ +++a+e+       +     +++l+ +d++g +W++k+iyr++++r++lt+GW+ Fv +++L +gD +v  +  +
  ONIVA01G11220.1 131 FCKILTPSDTSTHGGFSVLRRHANEClppldmsMAT--PTQELITKDLHGSEWRFKHIYRGQPRRHLLTTGWSTFVTSKKLISGDAFVYLR--S 220
                      99****************************974333..3458999******************************************9994..4 PP

                      SEE..EEEEE CS
               B3  88 sefelvvkvf 97 
                      +++e +v+v+
  ONIVA01G11220.1 221 ETGEQRVGVR 230
                      6777788886 PP
2Auxin_resp96.93e-32257338183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                      a+ha++t+s+F v+Y+Pr s+s+++v+v+k+++a kv + vGmRfkm+fe+ed++ +++sGt+vg  d  +++W++S+W+sLk
  ONIVA01G11220.1 257 ASHAIKTNSIFLVYYRPRLSQSQYIVSVNKYLAASKVGFNVGMRFKMSFEGEDVPVKKFSGTIVGEGD-LSLQWSGSEWKSLK 338
                      789*****************************************************************.566*********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.79E-37122260IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.2E-35123246IPR015300DNA-binding pseudobarrel domain
CDDcd100171.05E-15129230No hitNo description
SMARTSM010191.1E-15131233IPR003340B3 DNA binding domain
PROSITE profilePS5086310.842131233IPR003340B3 DNA binding domain
PfamPF023622.5E-19131230IPR003340B3 DNA binding domain
PfamPF065077.3E-29257338IPR010525Auxin response factor
PfamPF023093.9E-7590641IPR033389AUX/IAA domain
SuperFamilySSF542772.8E-9600677No hitNo description
PROSITE profilePS5174525.447604693IPR000270PB1 domain
Gene3DG3DSA:3.10.20.2401.6E-4606669No hitNo description
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
Sequence ? help Back to Top
Protein Sequence    Length: 708 aa     Download sequence    Send to blast
MSSQGLMVGG AHAGAGGGVG DPELFAELWR ACAGPLVEVP QRDERVFYFL QGHLEQLQEP  60
TDPALLAEQI KMFQVPYKIL CKVVNVELKA ETETDEVFAQ ITLQPDPDQE NLPTLPDPPL  120
PEQPRPVVHS FCKILTPSDT STHGGFSVLR RHANECLPPL DMSMATPTQE LITKDLHGSE  180
WRFKHIYRGQ PRRHLLTTGW STFVTSKKLI SGDAFVYLRS ETGEQRVGVR HLVQKQSTMP  240
ASVISSQSMH LGVLASASHA IKTNSIFLVY YRPRLSQSQY IVSVNKYLAA SKVGFNVGMR  300
FKMSFEGEDV PVKKFSGTIV GEGDLSLQWS GSEWKSLKVQ WDEVTNVNGP ERVSPWEIET  360
CDGTAPAINV PLQSATKNKR PREPSETIDL QSLEPAQEFW LSGMPQQHEK TGIGSSEPNC  420
ISGHQVVWPG EHPGYGAVSS SVCQNPLVLE SWLKDFNSSN KGVSPTLSEI SQKIFQVTSN  480
EARIATWPAR SAYQAEEPTS KLSSNTAACG YRTEEVAPNA SKVVEGKKEP AMFRLFGVDL  540
MKCTSISTTT DDKSSVGAGE ASAKGTGSHE DSGQLSAFSK VTKEHIAADE SPQEIQSHQN  600
YTARTRIKVQ MHGNAVGRAV DLANLDGYEQ LMNELEEMFN IKDLKQKWKV AFTDDEGDTM  660
EVGDDPWLEF CQMVRKIVLY PIEDEKKIEP HPKLLSSANP EQDQKTGF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-15073591353Auxin response factor 1
4ldw_A1e-15073591353Auxin response factor 1
4ldw_B1e-15073591353Auxin 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 -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin under light or dark conditions. {ECO:0000269|PubMed:17408882}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1025210.0AK102521.1 Oryza sativa Japonica Group cDNA clone:J033095P08, full insert sequence.
GenBankEU8470080.0EU847008.1 Oryza sativa Japonica Group clone KCS385B05 auxin response factor mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015622434.10.0auxin response factor 1
SwissprotQ5NB850.0ARFA_ORYSJ; Auxin response factor 1
TrEMBLA0A0E0FJ740.0A0A0E0FJ74_ORYNI; Auxin response factor
STRINGONIVA01G11220.10.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP108236116
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G59750.31e-180auxin response factor 1
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]