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_Os06g01860.1
Common NameLOC4339875, Os06g0107800, P0514G12.9, P0644B06.53
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: 200aa    MW: 21585.6 Da    PI: 9.8329
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os06g01860.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B380.81.4e-2537138197
                       EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS..-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesg..rsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                       f+kv tpsdv+k++rlv+pk++ae++         ++ ++ l +ed +g   +W+++++y+ +s++yv+tkGW+++v++++L +gD+v F   
  LOC_Os06g01860.1  37 FEKVVTPSDVGKLNRLVVPKHYAEKYfplgpaARTSPAGTVLCFEDARGgdSTWRFRYSYWSSSQSYVITKGWSRYVRDKRLAAGDTVSFC-- 127
                       99***************************999445557789*****99999***************************************9.. PP

                       SSSEE..EEEEE CS
                B3  86 grsefelvvkvf 97 
                        r +++l++  +
  LOC_Os06g01860.1 128 -RAGARLFIDCR 138
                       .44555666655 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.103.0E-3431150IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.92E-2633133IPR015300DNA-binding pseudobarrel domain
CDDcd100179.36E-1936126No hitNo description
SMARTSM010191.3E-1837141IPR003340B3 DNA binding domain
PfamPF023627.7E-2337139IPR003340B3 DNA binding domain
PROSITE profilePS5086312.05537141IPR003340B3 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:0009005anatomyroot
Sequence ? help Back to Top
Protein Sequence    Length: 200 aa     Download sequence    Send to blast
MATIVAWESR NLQLQGGGGG HGGGGGGGGG ERREYMFEKV VTPSDVGKLN RLVVPKHYAE  60
KYFPLGPAAR TSPAGTVLCF EDARGGDSTW RFRYSYWSSS QSYVITKGWS RYVRDKRLAA  120
GDTVSFCRAG ARLFIDCRKR AASVSSSSLV PPALIKVQLP PSRPVVDEEE AACGRRCLRL  180
FGVDLQLRAD ASPALDLQL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A3e-42331404113B3 domain-containing transcription factor NGA1
5os9_B3e-42331404113B3 domain-containing transcription factor NGA1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.366720.0root| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1166401490.0
Expression AtlasQ5VS55-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os06g01860.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs06g01860
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0006160.0AP000616.2 Oryza sativa Japonica Group genomic DNA, chromosome 6, clone:P0514G12.
GenBankAP0011290.0AP001129.1 Oryza sativa Japonica Group genomic DNA, chromosome 6, PAC clone:P0644B06.
GenBankAP0149620.0AP014962.1 Oryza sativa Japonica Group DNA, chromosome 6, cultivar: Nipponbare, complete sequence.
GenBankKC0191720.0KC019172.1 Oryza sativa Indica Group cultivar TN1 insect-resistance protein (BPH29) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015642534.11e-144B3 domain-containing protein Os06g0107800
SwissprotQ5VS551e-145Y6078_ORYSJ; B3 domain-containing protein Os06g0107800
TrEMBLA0A0K0K5141e-142A0A0K0K514_ORYSI; Insect-resistance protein
STRINGORUFI06G00530.11e-142(Oryza rufipogon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP129472934
Representative plantOGRP36516108
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G36080.11e-42B3 family protein