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 ONIVA06G16870.1
Organism
Oryza nivara
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 M-type_MADS
Protein Properties Length: 77aa    MW: 8611.87 Da    PI: 10.028
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ONIVA06G16870.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF88.43.9e-28959151
                     S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
           SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                     +rien++ rqvtfskRr g++KKA+EL +LCda+v v++fsstg+ly+ys+
  ONIVA06G16870.1  9 SRIENTTSRQVTFSKRRSGLFKKAKELAILCDAQVGVLVFSSTGRLYDYSN 59
                     59***********************************************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006628.595161IPR002100Transcription factor, MADS-box
SMARTSM004323.3E-35160IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.83E-26364IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-26323IPR002100Transcription factor, MADS-box
CDDcd002651.88E-33364No hitNo description
PfamPF003191.1E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-262338IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-263859IPR002100Transcription factor, MADS-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007584Biological Processresponse to nutrient
GO:0010167Biological Processresponse to nitrate
GO:0048527Biological Processlateral root development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0008134Molecular Functiontranscription factor binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 77 aa     Download sequence    Send to blast
MVRGKTVISR IENTTSRQVT FSKRRSGLFK KAKELAILCD AQVGVLVFSS TGRLYDYSNC  60
SNSRNLTYDQ LLGDTVC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P5e-15166166Myocyte-specific enhancer factor 2B
1tqe_Q5e-15166166Myocyte-specific enhancer factor 2B
1tqe_R5e-15166166Myocyte-specific enhancer factor 2B
1tqe_S5e-15166166Myocyte-specific enhancer factor 2B
6c9l_A5e-15166166Myocyte-specific enhancer factor 2B
6c9l_B5e-15166166Myocyte-specific enhancer factor 2B
6c9l_C5e-15166166Myocyte-specific enhancer factor 2B
6c9l_D5e-15166166Myocyte-specific enhancer factor 2B
6c9l_E5e-15166166Myocyte-specific enhancer factor 2B
6c9l_F5e-15166166Myocyte-specific enhancer factor 2B
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
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
GenBankAP0056461e-94AP005646.2 Oryza sativa Japonica Group genomic DNA, chromosome 6, BAC clone:B1077E08.
GenBankAP0149621e-94AP014962.1 Oryza sativa Japonica Group DNA, chromosome 6, cultivar: Nipponbare, complete sequence.
GenBankCP0126141e-94CP012614.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 6 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015641670.12e-35MADS-box transcription factor 23-like
SwissprotQ6EP491e-26MAD27_ORYSJ; MADS-box transcription factor 27
SwissprotQ6VAM44e-27MAD23_ORYSJ; MADS-box transcription factor 23
TrEMBLA0A0E0HQK32e-48A0A0E0HQK3_ORYNI; Uncharacterized protein
STRINGONIVA06G16870.13e-49(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP12938398
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G37940.11e-28AGAMOUS-like 21
Publications ? help Back to Top
  1. 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]
  2. 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]
  3. Wang H, et al.
    A Signaling Cascade from miR444 to RDR1 in Rice Antiviral RNA Silencing Pathway.
    Plant Physiol., 2016. 170(4): p. 2365-77
    [PMID:26858364]