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_Os04g28000.1
Common NameOs04g0347400, Os04g0347500, OsJ_14357, OSJNBa0020I02.7
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: 251aa    MW: 28033.3 Da    PI: 9.8435
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os04g28000.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.42.6e-23142236186
                       EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS.......-EEEEEE..EEETTE..EEE-TTHHHHHHHHT--TT-EEEEEE CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesg.......rsWevkliyrkksgr..yvltkGWkeFvkangLkegDfvvFkl 84 
                       ++k+++++++l++g+++lp  f++++g+++e+++tl++++++g       rsWev ++++k++ +   +l +GWk+F++angL +gD+++F++
  LOC_Os04g28000.1 142 WIKKEISNYMLENGNISLPGIFCKSIGLVEETTITLMINSSRGrssssssRSWEVACSVNKNGYGccNLLPSGWKRFCQANGLLVGDVCTFSV 234
                       789******************************************************99666666779***********************96 PP

                       -S CS
                B3  85 dg 86 
                       ++
  LOC_Os04g28000.1 235 VE 236
                       43 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086311.66162IPR003340B3 DNA binding domain
CDDcd100175.93E-8459No hitNo description
SuperFamilySSF1019361.06E-11464IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.4E-10664IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.59E-15137246IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.4E-17138246IPR015300DNA-binding pseudobarrel domain
PfamPF023621.0E-21142246IPR003340B3 DNA binding domain
PROSITE profilePS5086311.575142248IPR003340B3 DNA binding domain
SMARTSM010192.0E-6143248IPR003340B3 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
Sequence ? help Back to Top
Protein Sequence    Length: 251 aa     Download sequence    Send to blast
MASILSPLGK FWRIELEKDE LGMFFKGGWL QFLSFHGISP GDVVLLRHEG NLVFKIKVFG  60
INGCKKDLKT KDDITIQQSA RNQHETPSFS TRKCNKNSRF GEDCKNQLQE IPCSIKGSRK  120
KGRETKRPKK SKSIYEIGPP SWIKKEISNY MLENGNISLP GIFCKSIGLV EETTITLMIN  180
SSRGRSSSSS SRSWEVACSV NKNGYGCCNL LPSGWKRFCQ ANGLLVGDVC TFSVVEATLW  240
HVAIDRVERS *
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1119128KKGRETKRPK
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasQ7XS74
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os04g28000.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs04g28000
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL6629631e-156AL662963.3 Oryza sativa genomic DNA, chromosome 4, BAC clone: OSJNBa0020I02, complete sequence.
GenBankAP0149601e-156AP014960.1 Oryza sativa Japonica Group DNA, chromosome 4, cultivar: Nipponbare, complete sequence.
GenBankCP0126121e-156CP012612.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 4 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025880727.11e-165LOW QUALITY PROTEIN: putative B3 domain-containing protein Os04g0347400
SwissprotQ7XS740.0Y4474_ORYSJ; Putative B3 domain-containing protein Os04g0347400
TrEMBLB8ASH10.0B8ASH1_ORYSI; Uncharacterized protein
STRINGORUFI04G09430.10.0(Oryza rufipogon)
STRINGONIVA04G06710.10.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP42535187
Representative plantOGRP10106410
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G26680.16e-10B3 family protein