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_Os04g49230.1
Common NameOs04g0581400, OSJNBa0088A01.1
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 B3
Protein Properties Length: 317aa    MW: 34509.1 Da    PI: 8.7294
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os04g49230.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B394.85.9e-30110198185
                       EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                       f+kv tpsdv+k++rlv+pk++ae++    +  +e++  l++ed++g+ W+++++y+++s++yv+tkGW++Fvk+++L++gD+v F + 
  LOC_Os04g49230.1 110 FDKVVTPSDVGKLNRLVIPKQHAEKYfpldSAANEKGLLLSFEDRTGKLWRFRYSYWNSSQSYVMTKGWSRFVKEKRLDAGDTVSFCRG 198
                       89***************************955556889************************************************854 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.105.0E-41101215IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.53E-29107201IPR015300DNA-binding pseudobarrel domain
CDDcd100173.61E-25108195No hitNo description
PROSITE profilePS5086313.733110215IPR003340B3 DNA binding domain
PfamPF023625.8E-27110213IPR003340B3 DNA binding domain
SMARTSM010194.7E-21110215IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009030anatomycarpel
PO:0007130developmental stagesporophyte reproductive stage
PO:0007606developmental stagegynoecium development stage
Sequence ? help Back to Top
Protein Sequence    Length: 317 aa     Download sequence    Send to blast
MEFATTSSRF SKEEEEEEEG EQEMEQEQDE EEEEAEASPR EIPFMTSAAA AATASSSSPT  60
SVSPSATASA AASTSASGSP FRSSDGAGAS GSGGGGGGED VEVIEKEHMF DKVVTPSDVG  120
KLNRLVIPKQ HAEKYFPLDS AANEKGLLLS FEDRTGKLWR FRYSYWNSSQ SYVMTKGWSR  180
FVKEKRLDAG DTVSFCRGAA EATRDRLFID WKRRADVRDP HRFQRLPLPM TSPYGPWGGG  240
AGASSCRPRR PPRSTSITAF ARASTSATST PLCRRGSSSS SAPQGRGFIS TRPCHRRRRH  300
LRLLTNSTLR CTTRAP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A1e-621052173116B3 domain-containing transcription factor NGA1
5os9_B1e-621052173116B3 domain-containing transcription factor NGA1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.737360.0stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO2977233900.0
Expression AtlasQ7F9W2-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os04g49230.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs04g49230
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL6066880.0AL606688.3 Oryza sativa genomic DNA, chromosome 4, BAC clone: OSJNBa0064M23, complete sequence.
GenBankAL6629870.0AL662987.3 Oryza sativa genomic DNA, chromosome 4, BAC clone: OSJNBa0088A01, 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_015634107.11e-115LOW QUALITY PROTEIN: B3 domain-containing protein Os04g0581400-like
SwissprotQ7F9W20.0Y4814_ORYSJ; B3 domain-containing protein Os04g0581400
TrEMBLC7J1X00.0C7J1X0_ORYSJ; Os04g0581400 protein
STRINGOS04T0581400-010.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP58337168
Representative plantOGRP36516108
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G46870.15e-63B3 family protein
Publications ? help Back to Top
  1. Je BI, et al.
    RAV-Like1 maintains brassinosteroid homeostasis via the coordinated activation of BRI1 and biosynthetic genes in rice.
    Plant Cell, 2010. 22(6): p. 1777-91
    [PMID:20581303]