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_Os02g45850.1
Common NameLOC4330337, OJ1123_G04.23, Os02g0683500
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: 413aa    MW: 43947.8 Da    PI: 8.1305
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os02g45850.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B395.53.6e-3096187187
                       EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-.SS CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld.gr 87 
                       f+kv tpsdv+k++rlv+pk++ae++       +e++  l +ed+ g+ W+++++y+++s++yv+tkGW++Fvk+++L++gD+v F++  g+
  LOC_Os02g45850.1  96 FDKVVTPSDVGKLNRLVIPKQYAEKYfpldAAANEKGLLLNFEDRAGKPWRFRYSYWNSSQSYVMTKGWSRFVKEKRLDAGDTVSFSRGiGD 187
                       89***************************955556888************************************************944243 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.104.2E-4190203IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.36E-2993201IPR015300DNA-binding pseudobarrel domain
CDDcd100171.69E-2594183No hitNo description
SMARTSM010196.8E-2196202IPR003340B3 DNA binding domain
PfamPF023621.6E-2796189IPR003340B3 DNA binding domain
PROSITE profilePS5086314.7296200IPR003340B3 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: 413 aa     Download sequence    Send to blast
MEFTTSSRFS KEEEDEEQDE AGRREIPFMT ATAEAAPAPT SSSSSPAHHA ASASASASAS  60
GSSTPFRSDD GAGASGSGGG GGGGGEAEVV EKEHMFDKVV TPSDVGKLNR LVIPKQYAEK  120
YFPLDAAANE KGLLLNFEDR AGKPWRFRYS YWNSSQSYVM TKGWSRFVKE KRLDAGDTVS  180
FSRGIGDEAA RHRLFIDWKR RADTRDPLRL PRGLPLPMPL TSHYAPWGIG GGGGFFVQPS  240
PPATLYEHRL RQGLDFRAFN PAAAMGRQVL LFGSARIPPQ APLLARAPSP LHHHYTLQPS  300
GDGVRAAGSP VVLDSVPVIE SPTTAAKRVR LFGVNLDNPH AGGGGGAAAG ESSNHGNALS  360
LQTPAWMRRD PTLRLLELPP HHHHGAESSA ASSPSSSSSS KRDAHSALDL DL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A1e-61892011113B3 domain-containing transcription factor NGA1
5os9_B1e-61892011113B3 domain-containing transcription factor NGA1
Search in ModeBase
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329951170.0
Expression AtlasQ6EU30-
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os02g45850.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs02g45850
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1099080.0AK109908.1 Oryza sativa Japonica Group cDNA clone:002-149-G07, full insert sequence.
GenBankAP0041780.0AP004178.3 Oryza sativa Japonica Group genomic DNA, chromosome 2, BAC clone:OJ1123_G04.
GenBankAP0149580.0AP014958.1 Oryza sativa Japonica Group DNA, chromosome 2, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015624169.10.0B3 domain-containing protein Os02g0683500
SwissprotQ6EU300.0Y2835_ORYSJ; B3 domain-containing protein Os02g0683500
TrEMBLA0A0E0NJA80.0A0A0E0NJA8_ORYRU; Uncharacterized protein
STRINGOS02T0683500-010.0(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
AT1G01030.18e-66B3 family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]