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_Os12g06200.1
Common NameLOC4351555, Os12g0158800, OSNPB_120158800
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 E2F/DP
Protein Properties Length: 447aa    MW: 48581.5 Da    PI: 4.4092
Description E2F/DP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os12g06200.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1E2F_TDP83.32e-26130195171
           E2F_TDP   1 rkeksLrlltqkflkllekseegivtlnevakeLvsedvknkrRRiYDilNVLealnliekkekneirwkg 71 
                       r+++sL+llt+kfl+ll+ ++ giv+ln++a++L   +v  ++RRiYDi+NVLe+++liekk kn+irwkg
  LOC_Os12g06200.1 130 RYDSSLGLLTKKFLNLLKGAPGGIVDLNNAAETL---EV--QKRRIYDITNVLEGIGLIEKKLKNNIRWKG 195
                       6899******************************...99..****************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.108.6E-28128196IPR011991Winged helix-turn-helix DNA-binding domain
SuperFamilySSF467851.77E-16130193IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM013728.6E-35130195IPR003316E2F/DP family, winged-helix DNA-binding domain
PfamPF023191.7E-23132195IPR003316E2F/DP family, winged-helix DNA-binding domain
CDDcd146609.55E-49206312No hitNo description
SuperFamilySSF1440743.92E-33207312No hitNo description
PfamPF164211.4E-33211310IPR032198E2F transcription factor, CC-MB domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0005667Cellular Componenttranscription factor complex
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009049anatomyinflorescence
PO:0001083developmental stageinflorescence development stage
PO:0007006developmental stageIL.00 inflorescence just visible stage
Sequence ? help Back to Top
Protein Sequence    Length: 447 aa     Download sequence    Send to blast
MAAAGAGSSE VAARVLLQRY QPFAPPPGEY HQFGSGGAAA AGDMTEAVLI RTPLKRKHDR  60
EENEAAESND WMMSPGYTNP AGSPVPTPLS GKGSKAFAKS KAAKGQKSCP QTPLCASSPG  120
NPVTPVGGCR YDSSLGLLTK KFLNLLKGAP GGIVDLNNAA ETLEVQKRRI YDITNVLEGI  180
GLIEKKLKNN IRWKGIDDSR PGEVSDDMSI LQADIEALSL QEHSVDQQIS EMRDKLRGLT  240
EDENNQKWLY VTEDDIKSLP CFQNQTLIAI KAPHGTTLEV PDPDEVNDYP QRRYRIVLRS  300
TMGPIDVYLV SQFEEMSGME TPPRTVQPVS MDSLENPRTP LAAEPNKAAE SQPNIQDGLL  360
MPSDAPSSSQ DIGGMMKIVP SELDTDADYW LLSDAGVSIT DMWKTAPEVE WEGIEKFNAE  420
DFLEVSTPRQ QDKPSSDIMD GDSCIS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1cf7_A1e-22119196274PROTEIN (TRANSCRIPTION FACTOR E2F-4)
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.4240.0leaf| panicle| root| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329692510.0
Expression AtlasQ2QXF8-
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in a cell cycle-dependent manner. Most abundant in early S phase. Decreased expression during the passage into G2. {ECO:0000269|PubMed:11108847, ECO:0000269|PubMed:11669580, ECO:0000269|PubMed:11786543}.
UniprotTISSUE SPECIFICITY: Highly expressed in the shoot apical meristem, emerging leaf primordia, and vascular tissues of young leaf primordia. Expressed in flowers, in epidermis and cortex of hypocotyls, and at lower levels in leaves. {ECO:0000269|PubMed:11108847, ECO:0000269|PubMed:11889041}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that binds DNA cooperatively with DP proteins through the E2 recognition site, 5'-TTTC[CG]CGC-3' found in the promoter region of a number of genes whose products are involved in cell cycle regulation or in DNA replication. The binding of retinoblastoma-related proteins represses transactivation. Regulates gene expression both positively and negatively. Activates the expression of E2FB. Involved in the control of cell-cycle progression from G1 to S phase. Stimulates cell proliferation and delays differentiation. {ECO:0000269|PubMed:11669580, ECO:0000269|PubMed:11786543, ECO:0000269|PubMed:11862494, ECO:0000269|PubMed:11889041, ECO:0000269|PubMed:11891240, ECO:0000269|PubMed:12913157, ECO:0000269|PubMed:15377755, ECO:0000269|PubMed:16514015, ECO:0000269|PubMed:19662336}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os12g06200.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs12g06200
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0592330.0AK059233.1 Oryza sativa Japonica Group cDNA clone:001-024-E10, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015620749.10.0transcription factor E2FA
SwissprotQ9FNY01e-124E2FA_ARATH; Transcription factor E2FA
TrEMBLA0A0E0J7050.0A0A0E0J705_ORYNI; Uncharacterized protein
TrEMBLA0A0E0RE300.0A0A0E0RE30_ORYRU; Uncharacterized protein
TrEMBLA2ZIA20.0A2ZIA2_ORYSI; Uncharacterized protein
TrEMBLQ2QXF80.0Q2QXF8_ORYSJ; Os12g0158800 protein
STRINGORUFI12G04170.10.0(Oryza rufipogon)
STRINGOS12T0158800-010.0(Oryza sativa)
STRINGONIVA12G03230.10.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP62537148
Representative plantOGRP12251749
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G36010.11e-109E2F transcription factor 3
Publications ? help Back to Top
  1. Rice Chromosomes 11 and 12 Sequencing Consortia
    The sequence of rice chromosomes 11 and 12, rich in disease resistance genes and recent gene duplications.
    BMC Biol., 2005. 3: p. 20
    [PMID:16188032]
  2. Magyar Z, et al.
    Arabidopsis E2FA stimulates proliferation and endocycle separately through RBR-bound and RBR-free complexes.
    EMBO J., 2012. 31(6): p. 1480-93
    [PMID:22307083]