PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID OGLUM05G27420.2
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: 729aa    MW: 79665.4 Da    PI: 6.6991
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OGLUM05G27420.2genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.91.1e-24142243199
                      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++      + +++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv+ ++L +gD v+F   + +
  OGLUM05G27420.2 142 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyS-QQRPSQELVAKDLHGTEWRFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFL--RGD 232
                      99****************************963.3445679************************************************..348 PP

                      EE..EEEEE-S CS
               B3  89 efelvvkvfrk 99 
                      ++el+++v+r+
  OGLUM05G27420.2 233 DGELRLGVRRA 243
                      9999***9996 PP
2Auxin_resp111.39.6e-37268348182
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                      +aha++t+svF+++YnPr s+seF+v+++k++k+l++++svG Rfkm++e+ed+ err++G+++g  d+dp  W++SkW++L
  OGLUM05G27420.2 268 VAHAVATESVFNIYYNPRLSQSEFIVPYWKFMKSLSQPFSVGLRFKMRYESEDATERRYTGIITGSGDTDP-MWHGSKWKCL 348
                      79*********************************************************************.9********9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.108.8E-41135245IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.75E-43136258IPR015300DNA-binding pseudobarrel domain
CDDcd100175.58E-23140242No hitNo description
PfamPF023621.3E-22142243IPR003340B3 DNA binding domain
SMARTSM010195.3E-23142244IPR003340B3 DNA binding domain
PROSITE profilePS5086313.493142244IPR003340B3 DNA binding domain
PfamPF065074.1E-31268348IPR010525Auxin response factor
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
Sequence ? help Back to Top
Protein Sequence    Length: 729 aa     Download sequence    Send to blast
MTGIDLNTVE EDEEEAAEEV AANGSSPAPA RAGAVCLELW HACAGPVAPL PRKGGVVVYL  60
PQGHLEHLGD APAAAAAAAA VPPHVFCRVV DVTLLADAAT DEVYAQLSLV PEKEEVARRA  120
DDGEGEDGDG MKQRFARMPH MFCKTLTASD TSTHGGFSVP RRAAEDCFPP LDYSQQRPSQ  180
ELVAKDLHGT EWRFRHIYRG QPRRHLLTTG WSAFVNKKKL VSGDAVLFLR GDDGELRLGV  240
RRAAQLKNGS AFPALYNQCS NLGTLANVAH AVATESVFNI YYNPRLSQSE FIVPYWKFMK  300
SLSQPFSVGL RFKMRYESED ATERRYTGII TGSGDTDPMW HGSKWKCLLV RWDDDAEFRR  360
PNRVSPWEIE LTSSVSGSHL CTPHSKRLKP CLPHVNPEYM VPRGGGCPDF AESAQFHKVL  420
QGQELLGFKS HGGTAAATSQ PCEARHLQYI DERSCSSDAS NSILGVPRLG DRAPLGNPGF  480
SYHCSGFGES QRLQKVLQGQ ELFRPYRGTL VDASMGSNGF HQQDSSRAPG VVNKWQAQLH  540
GRAAFHGPPA PALPSQSSSP PSVLMFQQAN SKMPRLEFGH GQLDKHENDR RVRFGPSEGI  600
ERREQRIPLQ PYPTSGEVID GQVTVEKSHS PGRHGKDGPD NKAVGTNSCK IFGISLTEKV  660
PAREELDDGD ANYSLESLKQ VPKSLGNSCA TVHEQRPVVG RMVAEYQGDG GTDDSDIFIL  720
DVGVGALIM
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-117213783361Auxin response factor 1
4ldw_A1e-117213783361Auxin response factor 1
4ldw_B1e-117213783361Auxin 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
GenBankAB0712900.0AB071290.1 Oryza sativa OsETTIN1 mRNA for Arabidopsis ETTIN-like protein 1, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025881421.10.0auxin response factor 15 isoform X1
SwissprotQ8S9850.0ARFO_ORYSJ; Auxin response factor 15
TrEMBLA0A0E0A2T00.0A0A0E0A2T0_9ORYZ; Auxin response factor
STRINGOGLUM05G27420.20.0(Oryza glumipatula)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP25373580
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-160ARF family protein
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. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]
  3. Khanday I,Yadav SR,Vijayraghavan U
    Rice LHS1/OsMADS1 controls floret meristem specification by coordinated regulation of transcription factors and hormone signaling pathways.
    Plant Physiol., 2013. 161(4): p. 1970-83
    [PMID:23449645]