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 ONIVA04G27140.1
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: 1039aa    MW: 114354 Da    PI: 6.8923
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ONIVA04G27140.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.74.7e-23227328199
                      EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                      f+k lt sd++++g +++p++ ae+       ++++++ ++l+++d++ + W++++iyr++++r++lt+GW+ Fv a++Lk+gD+v+F   +++
  ONIVA04G27140.1 227 FCKNLTASDTSTHGGFSVPRRAAEKLfpqldySMQPPN-QELIVRDLHDNMWTFRHIYRGQPKRHLLTTGWSLFVGAKRLKAGDSVLFI--RDE 317
                      89*********************999*****9555555.49************************************************..456 PP

                      EE..EEEEE-S CS
               B3  89 efelvvkvfrk 99 
                      + +l+++v+r+
  ONIVA04G27140.1 318 KSQLLLGVRRA 328
                      77789999997 PP
2Auxin_resp117.31.3e-38353435183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                      aahaas++s F+++YnPr+s+s Fv++v++++ka++++ svGmRf m+fete+ss+rr++Gtvvg+sd+dp+rWpnSkWr+L+
  ONIVA04G27140.1 353 AAHAASSGSSFTIYYNPRTSPSPFVIPVARYNKATYMQPSVGMRFAMMFETEESSKRRYTGTVVGISDYDPMRWPNSKWRNLQ 435
                      79*******************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.92E-45217356IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.8E-40220341IPR015300DNA-binding pseudobarrel domain
CDDcd100173.05E-20226327No hitNo description
SMARTSM010191.3E-22227329IPR003340B3 DNA binding domain
PROSITE profilePS5086312.689227329IPR003340B3 DNA binding domain
PfamPF023621.3E-20227328IPR003340B3 DNA binding domain
PfamPF065075.3E-34353435IPR010525Auxin response factor
PfamPF023092.3E-108901023IPR033389AUX/IAA domain
SuperFamilySSF542778.5E-99331015No hitNo description
PROSITE profilePS5174525.5019361020IPR000270PB1 domain
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:0009908Biological Processflower development
GO:0009942Biological Processlongitudinal axis specification
GO:0010305Biological Processleaf vascular tissue pattern formation
GO:0048364Biological Processroot development
GO:0048507Biological Processmeristem development
GO:0005634Cellular Componentnucleus
GO:0016020Cellular Componentmembrane
GO:0042802Molecular Functionidentical protein binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 1039 aa     Download sequence    Send to blast
MRNHGFPPRK VGIFRAKQPR SAASHTGAAA AAAGERLGSQ DQEREGKRRK GDEGSTTTLL  60
RIIAIYCPHP TTTPTPVYST PQPLLLPPRE KAKTGVLRNA AALLDEMQLM GETQGAKKVI  120
NSELWHACAG PLVCLPQRGS LVYYFPQGHS EQVAATTRKI PNSRIPNYPN LPSQLLCQVH  180
NITLHADKDT DEVYAQMTLQ PVNSETDVFP IPTLGAYTKS KHPTEYFCKN LTASDTSTHG  240
GFSVPRRAAE KLFPQLDYSM QPPNQELIVR DLHDNMWTFR HIYRGQPKRH LLTTGWSLFV  300
GAKRLKAGDS VLFIRDEKSQ LLLGVRRATR QQTMLSSSVL STDSMHIGVL AAAAHAASSG  360
SSFTIYYNPR TSPSPFVIPV ARYNKATYMQ PSVGMRFAMM FETEESSKRR YTGTVVGISD  420
YDPMRWPNSK WRNLQVEWDE HGYGERPERV SIWDIETPEN TLVFPSSTLN SKRQCLPGYG  480
VSVPGMEIGS ANMSSFPRAQ GNPYGSLQHI PAVGSELAIM LLNQSGQTLG SPLSFHQSSY  540
SSIIQNVKQN YIPPLTVSTS ACLTKQESLP SDDAQHQFHM ANMQNGDLEG SEVQPVIDSI  600
SESKLNATSR DPRNTDPYTS RSTSEQNSKG EPRGKTRRSK KGLPHKTVSE KSDLSSAPSW  660
ICDNQQVGLE SKLVGCDEQV NCGNIEDSSG ALTQGNFVGQ PHGHQVEQKG VLSPPKVESS  720
KSPDGGKSVN SFPNQGCFSQ FIDGLDWMTQ PSYYQDSNVI QPAGVSENIF SSSADIPPSM  780
IADTMETFQA SCLSDCLPNS IQEFISSPDL NSLTFLSPDM QNLEVQLQHD GSNLPSTSNS  840
FVQMSFSEES ASQSANLSGL HMESTHRSIN TTSCSQPMST GGFDAGMYSK LPRLKESQIL  900
SLPEIHTNSM GTSACSMDAT EYSLDRSAKP MKPPVRTYTK VQKQGSVGRS IDVTGFRNYH  960
ELRSAIACMF GLQGKLEHPG SSEWKLVYVD YENDVLLVGD DPWEEFINCV RCIRILSPSE  1020
VQQMSENGMH VLNDCIQAA
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A0.09045810390Auxin 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).
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
MP00153DAPTransfer from AT1G19850Download
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
GenBankAB0712920.0AB071292.1 Oryza sativa OsMP mRNA for Arabidopsis Monopteros-like protein, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025881052.10.0auxin response factor 11-like isoform X1
SwissprotQ01K260.0ARFK_ORYSI; Auxin response factor 11
SwissprotQ8S9830.0ARFK_ORYSJ; Auxin response factor 11
TrEMBLA0A0E0H7380.0A0A0E0H738_ORYNI; Auxin response factor
STRINGONIVA04G27140.10.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP86733241
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G19850.10.0ARF family protein
Publications ? help Back to Top
  1. Shen C, et al.
    Functional analysis of the structural domain of ARF proteins in rice (Oryza sativa L.).
    J. Exp. Bot., 2010. 61(14): p. 3971-81
    [PMID:20693412]
  2. Indoliya Y, et al.
    Decoding regulatory landscape of somatic embryogenesis reveals differential regulatory networks between japonica and indica rice subspecies.
    Sci Rep, 2016. 6: p. 23050
    [PMID:26973288]