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 OB09G20040.1
Common NameLOC102722242
Organism
Oryza brachyantha
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 HD-ZIP
Protein Properties Length: 273aa    MW: 29178.1 Da    PI: 4.4943
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OB09G20040.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox59.45.7e-1949102356
                   --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
      Homeobox   3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                   k+++++ eq+++Le+ Fe ++++  e++++LA+ lgL+ rqV vWFqNrRa++k
  OB09G20040.1  49 KKRRLSVEQVRALERSFEVENKLEPERKARLARDLGLQPRQVAVWFQNRRARWK 102
                   456899***********************************************9 PP
2HD-ZIP_I/II132.61.4e-4248140193
   HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelke 93 
                   ekkrrls eqv++LE+sFe e+kLeperK++lar+LglqprqvavWFqnrRAR+ktkqlE+dy+aL+++yd+l+ ++++L++++++L +e+ke
  OB09G20040.1  48 EKKRRLSVEQVRALERSFEVENKLEPERKARLARDLGLQPRQVAVWFQNRRARWKTKQLERDYTALRHSYDTLRLDHDALRRDKDALLAEIKE 140
                   69**************************************************************************************99987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466891.34E-1938106IPR009057Homeodomain-like
PROSITE profilePS5007117.29744104IPR001356Homeobox domain
SMARTSM003892.1E-1847108IPR001356Homeobox domain
PfamPF000462.9E-1649102IPR001356Homeobox domain
CDDcd000861.40E-1849105No hitNo description
Gene3DG3DSA:1.10.10.601.5E-1951111IPR009057Homeodomain-like
PRINTSPR000319.3E-67584IPR000047Helix-turn-helix motif
PROSITE patternPS00027079102IPR017970Homeobox, conserved site
PRINTSPR000319.3E-684100IPR000047Helix-turn-helix motif
PfamPF021831.9E-16104144IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009637Biological Processresponse to blue light
GO:0030308Biological Processnegative regulation of cell growth
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
GO:0048573Biological Processphotoperiodism, flowering
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 273 aa     Download sequence    Send to blast
MKRSAGAGGG SPSLVPMANS SDDGYGGVGM EVEGDAEEEM MACGGGGEKK RRLSVEQVRA  60
LERSFEVENK LEPERKARLA RDLGLQPRQV AVWFQNRRAR WKTKQLERDY TALRHSYDTL  120
RLDHDALRRD KDALLAEIKE LKAKRGDGGA AASFPSVKEE PVASDGPPAA GFGSSDSDSS  180
AVLNDTDAAG AAPAAEALAP DVCTFLGAPS AAGQAGAGAT AASHGEVFFH VNFLKVEEDE  240
TGFLDDDEPC GGFFADEQPP PLSWWTEPTE HWN
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
17379ERKARLA
296104RRARWKTKQ
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription activator that binds to the DNA sequence 5'-CAAT[AT]ATTG-3'. May be involved in the regulation of gibberellin signaling. {ECO:0000269|PubMed:10732669, ECO:0000269|PubMed:18049796}.
UniProtProbable transcription activator that binds to the DNA sequence 5'-CAAT[AT]ATTG-3'. May be involved in the regulation of gibberellin signaling. {ECO:0000269|PubMed:10732669, ECO:0000269|PubMed:18049796}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00051PBMTransfer from AT4G40060Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapOB09G20040.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By gibberellin. Down-regulated in leaves by drought stress. {ECO:0000269|PubMed:17999151, ECO:0000269|PubMed:18049796}.
UniProtINDUCTION: By gibberellin. Down-regulated in leaves by drought stress. {ECO:0000269|PubMed:17999151, ECO:0000269|PubMed:18049796}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1054840.0AK105484.1 Oryza sativa Japonica Group cDNA clone:001-127-B05, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006660730.10.0PREDICTED: homeobox-leucine zipper protein HOX4 isoform X2
SwissprotQ6K4981e-145HOX4_ORYSJ; Homeobox-leucine zipper protein HOX4
SwissprotQ9XH371e-145HOX4_ORYSI; Homeobox-leucine zipper protein HOX4
TrEMBLJ3MYC50.0J3MYC5_ORYBR; Uncharacterized protein
STRINGOB09G20040.10.0(Oryza brachyantha)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP30093482
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G40060.15e-52homeobox protein 16
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]