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 ORUFI10G17990.1
Organism
Oryza rufipogon
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
Family MIKC_MADS
Protein Properties Length: 253aa    MW: 28462.6 Da    PI: 10.1744
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORUFI10G17990.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF93.69.3e-30959151
                     S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
           SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                     krien + rqvtfskRrng+lKKA+ELSvLCdaeva+i+fs++g+lye++s
  ORUFI10G17990.1  9 KRIENPTSRQVTFSKRRNGLLKKAFELSVLCDAEVALIVFSPRGRLYEFAS 59
                     79***********************************************86 PP
2K-box60.85.6e-2179171698
            K-box   6 gksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                      ++++ +++ ++ + +   L k++e L ++ R++lGe+Le  s++eL+ Le +Leksl kiR kK+ell +qi +l++ke+ l ++n++Lr k 
  ORUFI10G17990.1  79 NNKTIQQDIQQVKDDTLGLAKKLEALDESRRKILGENLEGFSIEELRGLEMKLEKSLHKIRLKKTELLEQQIAKLKEKERTLLKDNENLRGKH 171
                      444678889999*****************************************************************************9885 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004324.1E-39160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.314161IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.49E-31385IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-30323IPR002100Transcription factor, MADS-box
CDDcd002654.64E-41379No hitNo description
PfamPF003195.3E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-302338IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-303859IPR002100Transcription factor, MADS-box
PfamPF014869.9E-2184170IPR002487Transcription factor, K-box
PROSITE profilePS5129713.49487177IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010048Biological Processvernalization response
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 253 aa     Download sequence    Send to blast
MVRGRTELKR IENPTSRQVT FSKRRNGLLK KAFELSVLCD AEVALIVFSP RGRLYEFASA  60
PSLQKTIDRY KAYTKDHVNN KTIQQDIQQV KDDTLGLAKK LEALDESRRK ILGENLEGFS  120
IEELRGLEMK LEKSLHKIRL KKTELLEQQI AKLKEKERTL LKDNENLRGK HRNLEAAALV  180
ANHMTTTTAP AAWPRDVPMT SSTAGAADAM DVETDLYIGL PGTERSSNRS ETGNGIKFPV  240
STNTNGNKEL TKL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-17177176MEF2C
5f28_B1e-17177176MEF2C
5f28_C1e-17177176MEF2C
5f28_D1e-17177176MEF2C
6byy_A1e-17177176MEF2 CHIMERA
6byy_B1e-17177176MEF2 CHIMERA
6byy_C1e-17177176MEF2 CHIMERA
6byy_D1e-17177176MEF2 CHIMERA
6bz1_A1e-17177176MEF2 CHIMERA
6bz1_B1e-17177176MEF2 CHIMERA
6bz1_C1e-17177176MEF2 CHIMERA
6bz1_D1e-17177176MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0701350.0AK070135.1 Oryza sativa Japonica Group cDNA clone:J023043P08, full insert sequence.
GenBankAY5519190.0AY551919.1 Oryza sativa (japonica cultivar-group) MADS-box protein RMADS214 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015614799.11e-171MADS-box transcription factor 56
SwissprotP0C5B21e-172MAD56_ORYSJ; MADS-box transcription factor 56
TrEMBLA0A0E0R1U40.0A0A0E0R1U4_ORYRU; Uncharacterized protein
STRINGORUFI10G17990.10.0(Oryza rufipogon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP14133379
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G22950.12e-68AGAMOUS-like 19
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]
  2. 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]
  3. Bai Z, et al.
    The impact and origin of copy number variations in the Oryza species.
    BMC Genomics, 2016. 17: p. 261
    [PMID:27025496]
  4. Shibaya T, et al.
    Hd18, Encoding Histone Acetylase Related to Arabidopsis FLOWERING LOCUS D, is Involved in the Control of Flowering Time in Rice.
    Plant Cell Physiol., 2016. 57(9): p. 1828-38
    [PMID:27318280]
  5. Han Z,Zhang B,Zhao H,Ayaad M,Xing Y
    Genome-Wide Association Studies Reveal that Diverse Heading Date Genes Respond to Short and Long Day Lengths between Indica and Japonica Rice.
    Front Plant Sci, 2016. 7: p. 1270
    [PMID:27621738]