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 OBART02G05380.2
Organism
Oryza barthii
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: 206aa    MW: 22681.7 Da    PI: 7.0536
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OBART02G05380.2genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF87.38.5e-28959151
                     S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
           SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                     krien +nrqvtfskRr g+lKKA+EL vLCda+v v+ifsstgk++ey+s
  OBART02G05380.2  9 KRIENATNRQVTFSKRRGGLLKKANELAVLCDARVGVVIFSSTGKMFEYCS 59
                     79***********************************************96 PP
2K-box17.91.3e-076211746100
            K-box  46 LslkeLqqLeqqLeks.lkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                      +sl+eL +  q + +   ++i   +++ll +q+++l++ke+ l+++n  L ++++e
  OBART02G05380.2  62 CSLRELIEHYQTVTNThFEEINHDQHQLLNQQLDNLRRKEHILEDQNSFLCRMINE 117
                      78888877777776553799******************************998875 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.3E-41160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006632.198161IPR002100Transcription factor, MADS-box
CDDcd002654.94E-44278No hitNo description
SuperFamilySSF554551.44E-33294IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004042.2E-29323IPR002100Transcription factor, MADS-box
PfamPF003191.7E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004042.2E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004042.2E-293859IPR002100Transcription factor, MADS-box
PfamPF014869.7E-662115IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0019252Biological Processstarch biosynthetic process
GO:0043068Biological Processpositive regulation of programmed cell death
GO:0048316Biological Processseed development
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: 206 aa     Download sequence    Send to blast
MGRGKIEIKR IENATNRQVT FSKRRGGLLK KANELAVLCD ARVGVVIFSS TGKMFEYCSP  60
TCSLRELIEH YQTVTNTHFE EINHDQHQLL NQQLDNLRRK EHILEDQNSF LCRMINENHH  120
QAAVGGGDVK AMVEMAPVLS MLTAAPAYYG EESSSTALQL TPPLHAVDAA AAAGFRLQPT  180
QPNLQDPGCS SSSFHAAAAG HGLQLW
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A6e-20193191MEF2C
5f28_B6e-20193191MEF2C
5f28_C6e-20193191MEF2C
5f28_D6e-20193191MEF2C
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
GenBankAK1095220.0AK109522.1 Oryza sativa Japonica Group cDNA clone:002-115-F04, full insert sequence.
GenBankFJ7509330.0FJ750933.1 Oryza sativa clone KCS006F06 MADS-box transcription factor 29 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015624837.11e-124MADS-box transcription factor 29 isoform X1
RefseqXP_025879036.11e-124MADS-box transcription factor 29 isoform X1
SwissprotQ6H7111e-125MAD29_ORYSJ; MADS-box transcription factor 29
TrEMBLA0A0D3F1A51e-154A0A0D3F1A5_9ORYZ; Uncharacterized protein
TrEMBLA0A0D9YMX51e-154A0A0D9YMX5_9ORYZ; Uncharacterized protein
TrEMBLA0A0E0G2031e-154A0A0E0G203_ORYNI; Uncharacterized protein
TrEMBLA0A0E0NAG81e-154A0A0E0NAG8_ORYRU; Uncharacterized protein
STRINGOGLUM02G05240.11e-154(Oryza glumipatula)
STRINGORUFI02G05500.11e-154(Oryza rufipogon)
STRINGONIVA02G05710.11e-154(Oryza nivara)
STRINGOBART02G05380.11e-154(Oryza barthii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G20240.12e-32MIKC_MADS family protein
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. Li M,Sun P,Zhou H,Chen S,Yu S
    Identification of quantitative trait loci associated with germination using chromosome segment substitution lines of rice (Oryza sativa L.).
    Theor. Appl. Genet., 2011. 123(3): p. 411-20
    [PMID:21512773]
  3. Yin LL,Xue HW
    The MADS29 transcription factor regulates the degradation of the nucellus and the nucellar projection during rice seed development.
    Plant Cell, 2012. 24(3): p. 1049-65
    [PMID:22408076]
  4. Yang X, et al.
    Live and let die - the B(sister) MADS-box gene OsMADS29 controls the degeneration of cells in maternal tissues during seed development of rice (Oryza sativa).
    PLoS ONE, 2012. 7(12): p. e51435
    [PMID:23251532]
  5. Nayar S,Sharma R,Tyagi AK,Kapoor S
    Functional delineation of rice MADS29 reveals its role in embryo and endosperm development by affecting hormone homeostasis.
    J. Exp. Bot., 2013. 64(14): p. 4239-53
    [PMID:23929654]
  6. Nayar S,Kapoor M,Kapoor S
    Post-translational regulation of rice MADS29 function: homodimerization or binary interactions with other seed-expressed MADS proteins modulate its translocation into the nucleus.
    J. Exp. Bot., 2014. 65(18): p. 5339-50
    [PMID:25096923]
  7. Schilling S, et al.
    Non-canonical structure, function and phylogeny of the Bsister MADS-box gene OsMADS30 of rice (Oryza sativa).
    Plant J., 2015. 84(6): p. 1059-72
    [PMID:26473514]