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_Os03g08754.1
Common NameLOC4331872
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 MIKC_MADS
Protein Properties Length: 251aa    MW: 27910.4 Da    PI: 6.5749
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os03g08754.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF79.62.1e-252978251
                      ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
            SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                      ri+n   rqvtfskRr g++KKAeELS+LCdaev +++fs tgkl+ ++s
  LOC_Os03g08754.1 29 RIDNLAARQVTFSKRRRGLFKKAEELSILCDAEVGLVVFSATGKLFQFAS 78
                      89*********************************************986 PP
2K-box39.72.1e-141101911899
             K-box  18 qqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                       +   a+Lk+e+ +    +R++ Ge+L++L++++Lq+Le+ Le++l ++ ++K++ +l++i+ l +k  +l een +L+++l+
  LOC_Os03g08754.1 110 SSTCARLKEELAETSLRLRQMRGEELHRLNVEQLQELEKSLESGLGSVLKTKSKKILDEIDGLERKRMQLIEENLRLKEQLQ 191
                       66789**********99*************************************************************9986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004322.1E-332079IPR002100Transcription factor, MADS-box
PROSITE profilePS5006627.3192080IPR002100Transcription factor, MADS-box
PROSITE patternPS0035002276IPR002100Transcription factor, MADS-box
SuperFamilySSF554555.1E-292294IPR002100Transcription factor, MADS-box
CDDcd002658.84E-382293No hitNo description
PRINTSPR004045.9E-252242IPR002100Transcription factor, MADS-box
PfamPF003191.8E-242976IPR002100Transcription factor, MADS-box
PRINTSPR004045.9E-254257IPR002100Transcription factor, MADS-box
PRINTSPR004045.9E-255778IPR002100Transcription factor, MADS-box
PROSITE profilePS5129711.889106198IPR002487Transcription factor, K-box
PfamPF014861.5E-12111190IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009266Biological Processresponse to temperature stimulus
GO:0009910Biological Processnegative regulation of flower development
GO:0010076Biological Processmaintenance of floral meristem identity
GO:0010582Biological Processfloral meristem determinacy
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048438Biological Processfloral whorl development
GO:0005634Cellular Componentnucleus
GO:0000900Molecular Functiontranslation repressor activity, nucleic acid binding
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: 251 aa     Download sequence    Send to blast
MAGGGGGGGR GEGEGRAATG KRERIAIRRI DNLAARQVTF SKRRRGLFKK AEELSILCDA  60
EVGLVVFSAT GKLFQFASTS MEQIIDRYNS HSKTLQRAEP SQLDLQGEDS STCARLKEEL  120
AETSLRLRQM RGEELHRLNV EQLQELEKSL ESGLGSVLKT KSKKILDEID GLERKRMQLI  180
EENLRLKEQL QVSRMSRMEE MQPGPDSEIV YEEGQSSESV TNASYPRPPP DNDYSSDTSL  240
RLGLSLFSSK *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A3e-202292373MEF2C
5f28_B3e-202292373MEF2C
5f28_C3e-202292373MEF2C
5f28_D3e-202292373MEF2C
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.222810.0callus| leaf| root| seed| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1160115760.0
Expression AtlasQ10QR6-
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, shoots and developing panicles. {ECO:0000269|PubMed:15682279}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00272DAPTransfer from AT2G22540Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os03g08754.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs03g08754
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY3452220.0AY345222.1 Oryza sativa (japonica cultivar-group) transcription factor MADS47-2 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015630610.11e-180MADS-box transcription factor 47 isoform X1
SwissprotQ5K4R01e-176MAD47_ORYSJ; MADS-box transcription factor 47
TrEMBLQ10QR61e-178Q10QR6_ORYSJ; SHORT VEGETATIVE PHASE protein, putative, expressed
STRINGORGLA03G0061100.11e-178(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP12213697
Representative plantOGRP60761120
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G22540.11e-66MIKC_MADS family protein
Publications ? help Back to Top
  1. Lee S, et al.
    Systematic reverse genetic screening of T-DNA tagged genes in rice for functional genomic analyses: MADS-box genes as a test case.
    Plant Cell Physiol., 2003. 44(12): p. 1403-11
    [PMID:14701936]
  2. Duan K, et al.
    A brassinolide-suppressed rice MADS-box transcription factor, OsMDP1, has a negative regulatory role in BR signaling.
    Plant J., 2006. 47(4): p. 519-31
    [PMID:16827922]
  3. Lee S,Choi SC,An G
    Rice SVP-group MADS-box proteins, OsMADS22 and OsMADS55, are negative regulators of brassinosteroid responses.
    Plant J., 2008. 54(1): p. 93-105
    [PMID:18182025]
  4. Lee S,Jeong DH,An G
    A possible working mechanism for rice SVP-group MADS-box proteins as negative regulators of brassinosteroid responses.
    Plant Signal Behav, 2008. 3(7): p. 471-4
    [PMID:19704489]