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 OGLUM04G28480.1
Organism
Oryza glumaepatula
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: 1036aa    MW: 114229 Da    PI: 6.8279
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OGLUM04G28480.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.74.7e-23224325199
                      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   +++
  OGLUM04G28480.1 224 FCKNLTASDTSTHGGFSVPRRAAEKLfpqldySMQPPN-QELIVRDLHDNMWTFRHIYRGQPKRHLLTTGWSLFVGAKRLKAGDSVLFI--RDE 314
                      89*********************999*****9555555.49************************************************..456 PP

                      EE..EEEEE-S CS
               B3  89 efelvvkvfrk 99 
                      + +l+++v+r+
  OGLUM04G28480.1 315 KSQLLLGVRRA 325
                      77789999997 PP
2Auxin_resp117.31.3e-38350432183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                      aahaas++s F+++YnPr+s+s Fv++v++++ka++++ svGmRf m+fete+ss+rr++Gtvvg+sd+dp+rWpnSkWr+L+
  OGLUM04G28480.1 350 AAHAASSGSSFTIYYNPRTSPSPFVIPVARYNKATYMQPSVGMRFAMMFETEESSKRRYTGTVVGISDYDPMRWPNSKWRNLQ 432
                      79*******************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.92E-45214353IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.8E-40217338IPR015300DNA-binding pseudobarrel domain
CDDcd100173.04E-20223324No hitNo description
SMARTSM010191.3E-22224326IPR003340B3 DNA binding domain
PfamPF023621.3E-20224325IPR003340B3 DNA binding domain
PROSITE profilePS5086312.689224326IPR003340B3 DNA binding domain
PfamPF065075.3E-34350432IPR010525Auxin response factor
PfamPF023092.2E-108861020IPR033389AUX/IAA domain
SuperFamilySSF542778.5E-99301012No hitNo description
PROSITE profilePS5174525.5019331017IPR000270PB1 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: 1036 aa     Download sequence    Send to blast
MRNHGFPPRK VGIFRAKQPR SAASHTGAAA GERLGSQDQE REGKRRKGEE GSTTTLLRII  60
AIYCPHPTTT PTPVYSTPQP LLLPPREKAK TGVLRNAAAL LDEMQLMGET QGAKKVINSE  120
LWHACAGPLV CLPQRGSLVY YFPQGHSEQV AATTRKIPNS RIPNYPNLPS QLLCQVHNIT  180
LHADKDTDEV YAQMTLQPVN SETDVFPIPT LGAYTKSKHP TEYFCKNLTA SDTSTHGGFS  240
VPRRAAEKLF PQLDYSMQPP NQELIVRDLH DNMWTFRHIY RGQPKRHLLT TGWSLFVGAK  300
RLKAGDSVLF IRDEKSQLLL GVRRATRQQT MLSSSVLSTD SMHIGVLAAA AHAASSGSSF  360
TIYYNPRTSP SPFVIPVARY NKATYMQPSV GMRFAMMFET EESSKRRYTG TVVGISDYDP  420
MRWPNSKWRN LQVEWDEHGY GERPERVSIW DIETPENTLV FPSSTLNSKR QCLPGYGVSV  480
PGMEIGSANM SSFPRAQGNP YGSLQHIPAV GSELAIMLLN QSGQTLGSPL SFHQSSYSSI  540
IQNVKQNYIP PLTVSTSACL TKQESLPSDD AQHQFHMANM QNGDLEGSEV QPVIDLISES  600
KLNATSRDPR NTDSYTSRST SEQNSKGEPR GKTRRSKKGL PHKTVSEKSD LSSAPSWICD  660
NQQVGLESKL VGCDEQVNCG NIEDSSGALT QGNFVGQPHG HQVEQKGVLS PPKVESSKSP  720
DGGKSVNSFP NQGCFSQFID GLDWMTQPSY YQDSNVIQPA GVSENIFSSS ADIPPSMIAD  780
TMETFQASCL SDCLPNSIQE FISSPDLNSL TFLSPDMQNL EVQLQHDGSN LPSTSNSFVQ  840
MSFSEESASQ SENLSGLHME STHRSINTTS CSQPMSTGGF DAGMYSKLPR LKESQILSLP  900
EIHTNSMGTS ACSMDATEYS LDRSAKPMKP PVRTYTKVQK QGSVGRSIDV TGFRNYHELR  960
SAIACMFGLQ GKLEHPGSSE WKLVYVDYEN DVLLVGDDPW EEFINCVRCI RILSPSEVQQ  1020
MSENGMHVLN DCIQAA
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A0.08745510390Auxin 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
TrEMBLA0A0D9ZS170.0A0A0D9ZS17_9ORYZ; Auxin response factor
STRINGOGLUM04G28480.10.0(Oryza glumipatula)
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]