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 OGLUM01G35360.1
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: 714aa    MW: 78007.9 Da    PI: 7.8379
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OGLUM01G35360.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B378.57e-25174275199
                      EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                      f+k+lt sd++++g +++p++ ae++       ++    s++l+ +d++g +W++++iyr++++r++lt+GW++Fv+ ++L +gD v+F   + 
  OGLUM01G35360.1 174 FCKTLTASDTSTHGGFSVPRRAAEDCfppldhkQLR--PSQELVAKDLHGAKWRFRHIYRGQPRRHLLTTGWSSFVNKKKLVSGDAVLFL--RG 263
                      99**************************99865444..4669************************************************..34 PP

                      SEE..EEEEE-S CS
               B3  88 sefelvvkvfrk 99 
                      +++el+++v+r+
  OGLUM01G35360.1 264 DDGELRLGVRRA 275
                      89999****997 PP
2Auxin_resp114.97e-38300380182
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                      +a++++++svF+++YnPra++se+vv+++k++k+++++v++GmRfk++fe+ed++err sG+++gvs++dp+rWp+SkWrsL
  OGLUM01G35360.1 300 VADSLKHGSVFHICYNPRATASEYVVPYWKFVKSFNHPVCIGMRFKFHFESEDVNERR-SGMIAGVSEVDPIRWPGSKWRSL 380
                      578899****************************************************.9********************99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.62E-47158313IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.105.9E-39169277IPR015300DNA-binding pseudobarrel domain
CDDcd100178.99E-23172274No hitNo description
PROSITE profilePS5086313.507174276IPR003340B3 DNA binding domain
PfamPF023626.8E-23174275IPR003340B3 DNA binding domain
SMARTSM010192.8E-24174276IPR003340B3 DNA binding domain
PfamPF065073.2E-31301380IPR010525Auxin 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: 714 aa     Download sequence    Send to blast
MALPSFYRPP WPSERGGEQR ATDCWAGSPA AGGGRARATA MGIDLNNTAS GGEEDAPAPA  60
PVCRDLWHAC AGPVVSLPRR GSAVVYLPQG HLSAAGAGGG IRGEVAVALP PHVACRVVDV  120
ELCADAATDE VYARLALRAE GEVFERNLHG GGIEREDDME DGDEERKSRM LHMFCKTLTA  180
SDTSTHGGFS VPRRAAEDCF PPLDHKQLRP SQELVAKDLH GAKWRFRHIY RGQPRRHLLT  240
TGWSSFVNKK KLVSGDAVLF LRGDDGELRL GVRRATQLKN EAIFKAFSSE SSKMRTLSAV  300
ADSLKHGSVF HICYNPRATA SEYVVPYWKF VKSFNHPVCI GMRFKFHFES EDVNERRSGM  360
IAGVSEVDPI RWPGSKWRSL LVRWEDATDC NSQNRVSPWE IEIVGGSISV AHSLSASSSK  420
RTKLCPQGNL DVPALYGNGR PDSVETEKFP RVLQGQELMG SRTHRVTCSP QSIDITKSKS  480
FDAWRFLTDT RSCMLGSSTS RLPVQYSGYT HQSVSFGESI GFPEVLQGQE ISQTVPPFQG  540
MLPDACSAKS RYELKNYVCT PATMNGLSSA NEGYCLSLST VPPSPPSSLM LYQTGVPQLE  600
LASKNNDKSG NDSQPALRQH KLLSETSWDQ FKIGKASTPG NATKPGNGGR EVDRTSCRLF  660
GFSLTEKIIP TDKDGEKEVS YETDCQNPRM LDLFGYNCST PGALHALCAA PLGI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A1e-1006240219353Auxin response factor 1
4ldy_B1e-1006240219353Auxin 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
GenBankAK0723300.0AK072330.1 Oryza sativa Japonica Group cDNA clone:J023039P13, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015634503.10.0auxin response factor 3 isoform X2
SwissprotQ5JMM10.0ARFC_ORYSJ; Auxin response factor 3
TrEMBLA0A0D9YF290.0A0A0D9YF29_9ORYZ; Auxin response factor
STRINGOGLUM01G35360.10.0(Oryza glumipatula)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP51132756
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-151ARF 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. Song X, et al.
    Rice RNA-dependent RNA polymerase 6 acts in small RNA biogenesis and spikelet development.
    Plant J., 2012. 71(3): p. 378-89
    [PMID:22443269]