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 ORGLA04G0053100.1
Organism
Oryza glaberrima
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: 227aa    MW: 26069.6 Da    PI: 8.7524
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA04G0053100.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF83.31.5e-26959151
                       S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
             SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                       kri+n++nrqvtfskRr g++KKA EL +LCda+v +i+fs tg+ly++ss
  ORGLA04G0053100.1  9 KRIDNTTNRQVTFSKRRGGLMKKARELAILCDADVGLIVFSCTGRLYDFSS 59
                       79***********************************************96 PP
2K-box738.9e-25841701298
              K-box  12 akaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                        ++a+ +q+e++ L+++++nL +++R+llGe++++ ++++Lq L++q+e sl +iR+kK++ll e+i +l +k   +q+en +Lr+k+
  ORGLA04G0053100.1  84 SEAKFWQREVTTLRQQVQNLHHNNRQLLGEEISNFTVRDLQLLQNQVEMSLHSIRNKKDQLLAEEILKLNEKGSLVQKENSELRQKF 170
                        6789*********************************************************************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.202161IPR002100Transcription factor, MADS-box
SMARTSM004322.4E-38160IPR002100Transcription factor, MADS-box
CDDcd002652.06E-42276No hitNo description
SuperFamilySSF554552.75E-32287IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-27323IPR002100Transcription factor, MADS-box
PfamPF003194.6E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-272338IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-273859IPR002100Transcription factor, MADS-box
PfamPF014861.5E-2484170IPR002487Transcription factor, K-box
PROSITE profilePS5129714.41886176IPR002487Transcription 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: 227 aa     Download sequence    Send to blast
MGRGKIAIKR IDNTTNRQVT FSKRRGGLMK KARELAILCD ADVGLIVFSC TGRLYDFSSS  60
SMKSIIERYQ EAGEEHCRLL NPMSEAKFWQ REVTTLRQQV QNLHHNNRQL LGEEISNFTV  120
RDLQLLQNQV EMSLHSIRNK KDQLLAEEIL KLNEKGSLVQ KENSELRQKF NIAHQRNIEL  180
HKKLNCGEST SSEQVTRSSK DPGESSTPRE SRVCIDIELS QKGVEDE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-21176176MEF2C
5f28_B1e-21176176MEF2C
5f28_C1e-21176176MEF2C
5f28_D1e-21176176MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapORGLA04G0053100.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1029270.0AK102927.1 Oryza sativa Japonica Group cDNA clone:J033114E21, full insert sequence.
GenBankAY1776950.0AY177695.2 Oryza sativa (japonica cultivar-group) transcription factor MADS25 mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015635120.11e-162MADS-box transcription factor 25
SwissprotQ84NC51e-163MAD25_ORYSJ; MADS-box transcription factor 25
TrEMBLI1PK121e-165I1PK12_ORYGL; Uncharacterized protein
STRINGORGLA04G0053100.11e-166(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP61435130
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G57230.15e-80AGAMOUS-like 16
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]
  2. Puig J, et al.
    Analysis of the expression of the AGL17-like clade of MADS-box transcription factors in rice.
    Gene Expr. Patterns, 2013 Jun-Jul. 13(5-6): p. 160-70
    [PMID:23466806]
  3. Yu C, et al.
    The effects of fluctuations in the nutrient supply on the expression of five members of the AGL17 clade of MADS-box genes in rice.
    PLoS ONE, 2014. 9(8): p. e105597
    [PMID:25140876]