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_Os04g58010.1
Common NameOsJ_16617
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: 531aa    MW: 58648.6 Da    PI: 8.402
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os04g58010.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B358.61.1e-18370462392
                       EE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEE.TTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS
                B3   3 kvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltled.esgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 
                       k+lt+sdv++ gr+v+pk+ ae+h   + ++e++tl++ d +   +W++k+++  ++ks++yvl+  + +Fvk +gL++gD+++++ ++ +++
  LOC_Os04g58010.1 370 KELTNSDVGNIGRIVMPKRDAEAHlpALHQREGVTLKMDDfKFETTWNFKYRFwpNNKSRMYVLE-STGGFVKHHGLQTGDIFIIYKSS-ESG 460
                       89************************888999********7778*******9989999999**99.9******************9444.555 PP

                       .. CS
                B3  91 el 92 
                       ++
  LOC_Os04g58010.1 461 KF 462
                       44 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd100177.67E-22367463No hitNo description
Gene3DG3DSA:2.40.330.101.5E-24367463IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.02E-18367464IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS508639.474368470IPR003340B3 DNA binding domain
SMARTSM010196.1E-9368469IPR003340B3 DNA binding domain
PfamPF023621.4E-14370461IPR003340B3 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: 531 aa     Download sequence    Send to blast
MADARGSSSS SGDGGGGEGK GGAGHGDFVG GGQHNWYHGI LGAVPPPNVG RQNIVHHQYP  60
AASLIQQHHQ SPTMPLPMAQ LPYVPQYTVL PTPAVLPSHH HHHGQSQISQ ENFQDWVPSN  120
NVAAPHVPSA FQDWRQMCNG SAFMPFGQTA ANSNVFYQNL TFNSWTSNNM PRNPVYTSFH  180
PAAIEDHHAP LFHSNNHDID PEFLGNRHLH GVDIAGAPPA KATSPATAGG LLTNTAPATV  240
SQIHARCRRR QIYRCCGLLP RAPPPSDPCA FARATITAAR SARGLLSHLY GGLVFWLVGK  300
RKLGEKRERK RKVVAGMDPP IVFRRSDMES EKNDDNPDQT PVSEPPSMNQ NGENLIIRFN  360
CREYRVILRK ELTNSDVGNI GRIVMPKRDA EAHLPALHQR EGVTLKMDDF KFETTWNFKY  420
RFWPNNKSRM YVLESTGGFV KHHGLQTGDI FIIYKSSESG KFVSSVPFTS TTYGESDGED  480
YNGDRSGPGA GEVADEDFRK PEFGWYCCAK INRKESEIRE QVSKEKVNSN *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9c_A7e-343594554100B3 domain-containing transcription factor LEC2
6j9c_D7e-343594554100B3 domain-containing transcription factor LEC2
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.534771e-161callus| flower
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329828971e-161
Expression AtlasA3AYL7-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os04g58010.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs04g58010
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL6066680.0AL606668.2 Oryza sativa genomic DNA, chromosome 4, BAC clone: OSJNBa0064G10, 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_025880492.11e-121putative B3 domain-containing protein Os04g0676650
SwissprotQ7XKC41e-122Y4765_ORYSJ; Putative B3 domain-containing protein Os04g0676650
TrEMBLA3AYL70.0A3AYL7_ORYSJ; Uncharacterized protein
STRINGORGLA04G0258600.10.0(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP2156545
Representative plantOGRP7881766
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G24650.13e-34B3 family protein