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_Os10g39190.1
Common NameLOC107278273, Os10g0537100, OSJNBa0040D23.9
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: 313aa    MW: 33125.2 Da    PI: 10.0319
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os10g39190.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B393.91.1e-2935152199
                       EEEE-..-HHHHTT-EE--HHH.HTT...................---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT- CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeeh...................ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangL 74 
                       f+kv tpsdv+k++rlv+pk++ae++                   g    ++  l++ed++g+ W+++++y+++s++yv+tkGW++Fvk+++L
  LOC_Os10g39190.1  35 FEKVVTPSDVGKLNRLVIPKQHAERYfpldaaagaggggggggggG--GGKGLVLSFEDRTGKAWRFRYSYWNSSQSYVMTKGWSRFVKEKRL 125
                       99******************************99999999998543..347789*************************************** PP

                       -TT-EEEEEE-.SS.SEE..EEEEE-S CS
                B3  75 kegDfvvFkld.gr.sefelvvkvfrk 99 
                        +gD+v F +  g+  +++l++ ++r+
  LOC_Os10g39190.1 126 GAGDTVSFGRGlGDaARGRLFIDFRRR 152
                       *********666888999999999987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.108.2E-3828154IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.7E-2832136IPR015300DNA-binding pseudobarrel domain
CDDcd100172.69E-2533133No hitNo description
SMARTSM010191.4E-2135153IPR003340B3 DNA binding domain
PfamPF023628.3E-2735152IPR003340B3 DNA binding domain
PROSITE profilePS5086313.33835153IPR003340B3 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: 313 aa     Download sequence    Send to blast
MEFTPISPPT RVAGGEEDSE RGAAAWAVVE KEHMFEKVVT PSDVGKLNRL VIPKQHAERY  60
FPLDAAAGAG GGGGGGGGGG GGKGLVLSFE DRTGKAWRFR YSYWNSSQSY VMTKGWSRFV  120
KEKRLGAGDT VSFGRGLGDA ARGRLFIDFR RRRQDAGSFM FPPTAAPPSH SHHHHQRHHP  180
PLPSVPLCPW RDYTTAYGGG YGYGYGGGST PASSRHVLFL RPQVPAAVVL KSVPVHVAAT  240
SAVQEAATTT RPKRVRLFGV NLDCPAAMDD DDDIAGAASR TAASSLLQLP SPSSSTSSST  300
AGKKMCSLDL GL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A4e-55281521113B3 domain-containing transcription factor NGA1
5os9_B4e-55281521113B3 domain-containing transcription factor NGA1
Search in ModeBase
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasQ8LNN8
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os10g39190.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs10g39190
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0741960.0AC074196.14 Oryza sativa chromosome 10 BAC OSJNBa0040D23 genomic sequence, complete sequence.
GenBankAP0149660.0AP014966.1 Oryza sativa Japonica Group DNA, chromosome 10, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015613852.10.0putative B3 domain-containing protein Os10g0537100
SwissprotQ8LNN80.0Y1071_ORYSJ; Putative B3 domain-containing protein Os10g0537100
TrEMBLA0A0E0IVJ00.0A0A0E0IVJ0_ORYNI; Uncharacterized protein
TrEMBLA2Z9R30.0A2Z9R3_ORYSI; Uncharacterized protein
STRINGOS10T0537100-000.0(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
AT3G61970.11e-48B3 family protein
Publications ? help Back to Top
  1. Rice Chromosome 10 Sequencing Consortium
    In-depth view of structure, activity, and evolution of rice chromosome 10.
    Science, 2003. 300(5625): p. 1566-9
    [PMID:12791992]