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 OGLUM12G13560.1
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: 895aa    MW: 98572.1 Da    PI: 7.7127
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OGLUM12G13560.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.37e-24147248199
                      EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                      f+k+lt sd++++g +++ +++a+e+       +  ++ +++l+ +d++g +W++++i+r++++r++l++GW+ Fv+a++L +gD ++F   + 
  OGLUM12G13560.1 147 FCKTLTASDTSTHGGFSVLRRHADEClppldmsQ--HPPTQELVAKDLHGVEWRFRHIFRGQPRRHLLQSGWSVFVSAKRLVAGDAFIFL--RG 236
                      99*****************************544..455569************************************************..44 PP

                      SEE..EEEEE-S CS
               B3  88 sefelvvkvfrk 99 
                      +++el+v+v+r+
  OGLUM12G13560.1 237 ENGELRVGVRRA 248
                      9999*****996 PP
2Auxin_resp1125.7e-37273355183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                      a+ha++t+++F+v+Y+Pr+s+seFvv+++ +e++lk++ s+GmRfkm fe+e+++e+r++Gt+vgv d+dp+ W +SkWrsLk
  OGLUM12G13560.1 273 AWHAVNTGTMFTVYYKPRTSPSEFVVPRDLYEESLKRNHSIGMRFKMTFEGEEAAEQRFTGTIVGVGDSDPSGWADSKWRSLK 355
                      89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.103.0E-42140262IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.24E-41140276IPR015300DNA-binding pseudobarrel domain
CDDcd100177.95E-22145247No hitNo description
SMARTSM010199.8E-24147249IPR003340B3 DNA binding domain
PROSITE profilePS5086311.899147249IPR003340B3 DNA binding domain
PfamPF023629.0E-22147248IPR003340B3 DNA binding domain
PfamPF065073.6E-34273355IPR010525Auxin response factor
PfamPF023091.2E-11699797IPR033389AUX/IAA domain
PROSITE profilePS5174523.837712796IPR000270PB1 domain
SuperFamilySSF542776.38E-12714788No 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: 895 aa     Download sequence    Send to blast
MAAAATAAAS PVEGLTGGGG GGGGGVDGLF VELWRACAGP LVTVPAVGER VFYLPQGHIE  60
QVEASTNQVA EQQGAPLYNL PWKIPCKVMN VELKAEPDTD EVYAQLTLLP EKQQDGNGSG  120
NGYVSKDKVE EEVVPPAATE RPRVHSFCKT LTASDTSTHG GFSVLRRHAD ECLPPLDMSQ  180
HPPTQELVAK DLHGVEWRFR HIFRGQPRRH LLQSGWSVFV SAKRLVAGDA FIFLRGENGE  240
LRVGVRRAMR QQANIPSSVI SSHSMHLGVL ATAWHAVNTG TMFTVYYKPR TSPSEFVVPR  300
DLYEESLKRN HSIGMRFKMT FEGEEAAEQR FTGTIVGVGD SDPSGWADSK WRSLKVRWDE  360
AASVPRPDRV SPWQIEPANS PSPVNPLPAP RTKRARPNVL ASSPDLSAVN KEVASKVMAN  420
SQQNGLPRAF HSQENMNLRS RFGDSNELNT SQKLTMWSSG SNQEKNNVSV QRELGSQSWM  480
QMRRPDGSSE ILSGFQPLKD TRNPLSSFPS QISGNRSNTW NTINVHYPDQ NANHNMYPGT  540
WSLMPPNTGF GVNQQNYLMT PDITLPQRSL NAKFGGNGAF TSLRAHGIDQ RSSGWLGHIE  600
PSSHIDDASS SLIKPQPLVI DHNVQKAKGS SCMLFGISLD SPAKPELLIS PPSVAFDGKL  660
QQDALDEDEC SDPSKTVKPL DGAQHDSATE KHQSCPDGTK NIQSKQQNGS SRSCKKVHKQ  720
GIALGRSIDL TKFTCYDELI AELDQMFDFN GELNSSSKNW MVVYTDNEGD MMLVGDDPWN  780
EFCNMVHKIF IYTREEVQKM NPGALNSRSF VVCKNRRRHI HGRKESFRGV VVVAGALYVS  840
GKPRSTPFVD GACPGISCPL FVFDKFWVCF VEVLSYCMIC PVVVKGAEAK LPRPY
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-168193829359Auxin response factor 1
4ldw_A1e-168193829359Auxin response factor 1
4ldw_B1e-168193829359Auxin 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 -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0652540.0AK065254.1 Oryza sativa Japonica Group cDNA clone:J013002J11, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015620411.10.0auxin response factor 24 isoform X1
RefseqXP_015620412.10.0auxin response factor 24 isoform X1
SwissprotQ2QQX60.0ARFX_ORYSJ; Auxin response factor 24
TrEMBLA0A0E0BSP80.0A0A0E0BSP8_9ORYZ; Auxin response factor
STRINGOGLUM12G13560.10.0(Oryza glumipatula)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP117836111
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.30.0auxin response factor 2
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. Li G, et al.
    Rice actin-binding protein RMD is a key link in the auxin-actin regulatory loop that controls cell growth.
    Proc. Natl. Acad. Sci. U.S.A., 2014. 111(28): p. 10377-82
    [PMID:24982173]