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 BGIOSGA009797-PA
Common NameOsI_13539
Organism
Oryza sativa subsp. indica
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 MIKC_MADS
Protein Properties Length: 244aa    MW: 27501.2 Da    PI: 8.0779
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
BGIOSGA009797-PAgenomeRISView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF87.95.6e-281059251
                      ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
            SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                      rienk+ rqvtf+kRrng+lKKA+ELS+LCdaeva+++fs+ g+ly +ss
  BGIOSGA009797-PA 10 RIENKISRQVTFAKRRNGLLKKAYELSILCDAEVALVLFSHAGRLYQFSS 59
                      9***********************************************96 PP
2K-box91.51.5e-30871798100
             K-box   8 sleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                       + ++ ++++ +qe+ +Lk+ +e Lq++qR+llGedL +L  +eL+qLe+q+ + lk+iRs+K+++ll+++ +l++ke++lq++n+ L++kl+e
  BGIOSGA009797-PA  87 EMQKINHQNNYQEYVNLKAHVEILQQSQRNLLGEDLAPLATNELEQLESQVVRTLKQIRSRKTQVLLDELCDLKRKEQMLQDANRVLKRKLDE 179
                       378899************************************************************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.02161IPR002100Transcription factor, MADS-box
SMARTSM004322.9E-36160IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.12E-30280IPR002100Transcription factor, MADS-box
CDDcd002653.70E-41279No hitNo description
PRINTSPR004044.8E-29323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.1E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004044.8E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004044.8E-293859IPR002100Transcription factor, MADS-box
PfamPF014865.6E-2688177IPR002487Transcription factor, K-box
PROSITE profilePS5129714.95893183IPR002487Transcription factor, K-box
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
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 244 aa     Download sequence    Send to blast
MGRGKVVLQR IENKISRQVT FAKRRNGLLK KAYELSILCD AEVALVLFSH AGRLYQFSSS  60
SNMLKTLERY QRYIYASQDA AAPTSDEMQK INHQNNYQEY VNLKAHVEIL QQSQRNLLGE  120
DLAPLATNEL EQLESQVVRT LKQIRSRKTQ VLLDELCDLK RKEQMLQDAN RVLKRKLDEI  180
DVEAAPPQPP WNGNCSNGHG GGGGVFSSEP PQPEHFFQAL GLHAVDVNQP PAPPPGGYPP  240
EWMA
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ox0_A3e-219817722101Developmental protein SEPALLATA 3
4ox0_B3e-219817722101Developmental protein SEPALLATA 3
4ox0_C3e-219817722101Developmental protein SEPALLATA 3
4ox0_D3e-219817722101Developmental protein SEPALLATA 3
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.497610.0flower| panicle
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329854360.0
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Highly expressed in leaves and at low levels in roots and spikelets (rice flower). {ECO:0000269|Ref.7}.
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
GenBankAB0033240.0AB003324.1 Oryza sativa Japonica Group mRNA for MADS box-like protein, complete cds, clone:E31254.
GenBankAY5519170.0AY551917.1 Oryza sativa (japonica cultivar-group) MADS-box protein RMADS212 mRNA, complete cds.
GenBankAY5519220.0AY551922.1 Oryza sativa (japonica cultivar-group) MADS-box protein RMADS217 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015631035.11e-151MADS-box transcription factor 34
SwissprotQ6Q9H61e-152MAD34_ORYSJ; MADS-box transcription factor 34
TrEMBLA2XM300.0A2XM30_ORYSI; Uncharacterized protein
TrEMBLA3AMS50.0A3AMS5_ORYSJ; Uncharacterized protein
STRINGOMERI03G30860.11e-159(Oryza meridionalis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP136182630
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G15800.17e-73MIKC_MADS family protein
Publications ? help Back to Top
  1. Kobayashi K,Maekawa M,Miyao A,Hirochika H,Kyozuka J
    PANICLE PHYTOMER2 (PAP2), encoding a SEPALLATA subfamily MADS-box protein, positively controls spikelet meristem identity in rice.
    Plant Cell Physiol., 2010. 51(1): p. 47-57
    [PMID:19933267]
  2. Gao X, et al.
    The SEPALLATA-like gene OsMADS34 is required for rice inflorescence and spikelet development.
    Plant Physiol., 2010. 153(2): p. 728-40
    [PMID:20395452]
  3. Khanday I,Yadav SR,Vijayraghavan U
    Rice LHS1/OsMADS1 controls floret meristem specification by coordinated regulation of transcription factors and hormone signaling pathways.
    Plant Physiol., 2013. 161(4): p. 1970-83
    [PMID:23449645]
  4. Lin X, et al.
    The pleiotropic SEPALLATA-like gene OsMADS34 reveals that the 'empty glumes' of rice (Oryza sativa) spikelets are in fact rudimentary lemmas.
    New Phytol., 2014. 202(2): p. 689-702
    [PMID:24372518]
  5. Conrad LJ, et al.
    The polycomb group gene EMF2B is essential for maintenance of floral meristem determinacy in rice.
    Plant J., 2014. 80(5): p. 883-94
    [PMID:25279942]
  6. Liu M,Li H,Su Y,Li W,Shi C
    G1/ELE Functions in the Development of Rice Lemmas in Addition to Determining Identities of Empty Glumes.
    Front Plant Sci, 2016. 7: p. 1006
    [PMID:27462334]