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 LOC_Os04g46384.1
Common NameOs04g0549500, OsJ_15687, OSNPB_040549500
Organism
Oryza sativa subsp. japonica
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; Oryza sativa
Family MYB
Protein Properties Length: 344aa    MW: 37110.9 Da    PI: 7.9186
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os04g46384.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding34.25.9e-113176146
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
   Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46
                      +g+W +eEde l++ v+ +G+ +W++I ++  + Rt+k+c++rw +
  LOC_Os04g46384.1 31 KGPWMAEEDEVLLEHVRTHGPMDWSSIRSKGLLPRTGKSCRLRWVN 76
                      79******************99*****8876677**********87 PP
2Myb_DNA-binding43.28.8e-1487127345
                       SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHH CS
   Myb_DNA-binding   3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwq 45 
                       ++T+eE+   +++ +q+G++ W++Ia +++ gRt++++k++w 
  LOC_Os04g46384.1  87 KFTAEEERVVIELQAQFGNK-WARIATYLQ-GRTDNDVKNFWS 127
                       79******************.*********.***********5 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129413.3572678IPR017930Myb domain
Gene3DG3DSA:1.10.10.607.0E-192879IPR009057Homeodomain-like
SuperFamilySSF466895.86E-2629126IPR009057Homeodomain-like
SMARTSM007176.6E-93080IPR001005SANT/Myb domain
CDDcd001673.95E-103378No hitNo description
PfamPF139211.8E-103483No hitNo description
PROSITE profilePS5129420.31979134IPR017930Myb domain
Gene3DG3DSA:1.10.10.606.3E-1880132IPR009057Homeodomain-like
SMARTSM007179.7E-1284132IPR001005SANT/Myb domain
CDDcd001672.88E-1087126No hitNo description
PfamPF002495.4E-1287127IPR001005SANT/Myb domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0048235Biological Processpollen sperm cell differentiation
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0025281anatomypollen
PO:0001059developmental stageJ bicellular pollen stage
PO:0007130developmental stagesporophyte reproductive stage
Sequence ? help Back to Top
Protein Sequence    Length: 344 aa     Download sequence    Send to blast
MARAPGGVRR RSGRRGAGGG GAGGGGEALR KGPWMAEEDE VLLEHVRTHG PMDWSSIRSK  60
GLLPRTGKSC RLRWVNKLRP NLKSGCKFTA EEERVVIELQ AQFGNKWARI ATYLQGRTDN  120
DVKNFWSTRQ KRLARLLRGP LPAARPNKHN SGKGKAPSSS SLDSQTATFH QSSASLDQAS  180
LEGNSLGWQC REAAPFMGYD QACSGFFAFE GPLPLQLLPP ADGEASSSNA AQSAPPPLLF  240
DQPPYPLINF PGWPERYVDV GHGFVDAGAM DGLAYQELLP MVQSVPMIMP FFGMECAHDA  300
VKHGAFDDLP PNMFDDAVDQ PPPPPPPPPP PSPSPSPSRD DVL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1h8a_C3e-252913225126MYB TRANSFORMING PROTEIN
Search in ModeBase
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1154597670.0
Expression AtlasQ0JB89-
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000305}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os04g46384.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs04g46384
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL6630000.0AL663000.4 Oryza sativa genomic DNA, chromosome 4, BAC clone: OSJNBb0034G17, complete sequence.
GenBankAL7316130.0AL731613.5 Oryza sativa genomic DNA, chromosome 4, BAC clone: OSJNBa0065H10, complete sequence.
GenBankAP0149600.0AP014960.1 Oryza sativa Japonica Group DNA, chromosome 4, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015634881.20.0probable transcription factor MYB58
SwissprotQ0JB890.0MYB58_ORYSJ; Probable transcription factor MYB58
TrEMBLA0A0D9ZNW20.0A0A0D9ZNW2_9ORYZ; Uncharacterized protein
TrEMBLA0A0E0H3W50.0A0A0E0H3W5_ORYNI; Uncharacterized protein
TrEMBLA0A0E0H3W80.0A0A0E0H3W8_ORYNI; Uncharacterized protein
TrEMBLA0A0E0PCC00.0A0A0E0PCC0_ORYRU; Uncharacterized protein
TrEMBLA2XW630.0A2XW63_ORYSI; Uncharacterized protein
STRINGOGLUM04G20730.10.0(Oryza glumipatula)
STRINGORUFI04G22380.10.0(Oryza rufipogon)
STRINGONIVA04G19030.10.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP57003357
Representative plantOGRP5171784
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G60460.14e-57MYB family protein
Publications ? help Back to Top
  1. Yilmaz A, et al.
    GRASSIUS: a platform for comparative regulatory genomics across the grasses.
    Plant Physiol., 2009. 149(1): p. 171-80
    [PMID:18987217]