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 LPERR02G04610.1
Organism
Leersia perrieri
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; Leersia
Family MIKC_MADS
Protein Properties Length: 256aa    MW: 28550.3 Da    PI: 6.4161
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LPERR02G04610.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF86.81.2e-27959151
                     S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
           SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                     krien +nrqvtfskRr g+lKKA+EL vLCda+v v+ifsstgk++ey+s
  LPERR02G04610.1  9 KRIENATNRQVTFSKRRGGLLKKANELAVLCDARVGVVIFSSTGKMFEYCS 59
                     79***********************************************96 PP
2K-box50.77.8e-18721662100
            K-box   2 qkssgks.leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaL 94 
                      q+ ++++  e ++ ++   e++++++e+e+L + +R++ G+dL++L+l +++ LeqqLe s++     K++ll +q+++l++ke+ l+++n  L
  LPERR02G04610.1  72 QTVTNTHfDEINHDQQIFVEMTRMRNEMEKLDSGIRRFTGDDLSNLTLADINDLEQQLEFSVT-----KHQLLNQQLDNLRRKEHILDDQNSFL 160
                      5555666566778899999******************************************96.....9************************* PP

            K-box  95 rkklee 100
                       ++++e
  LPERR02G04610.1 161 CRMINE 166
                      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
CDDcd002658.70E-43278No hitNo description
SuperFamilySSF554552.75E-32288IPR002100Transcription factor, MADS-box
PRINTSPR004043.7E-29323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003192.5E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004043.7E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004043.7E-293859IPR002100Transcription factor, MADS-box
PfamPF014866.2E-1781164IPR002487Transcription factor, K-box
PROSITE profilePS512979.63385170IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0008360Biological Processregulation of cell shape
GO:0019252Biological Processstarch biosynthetic process
GO:0043068Biological Processpositive regulation of programmed cell death
GO:0048316Biological Processseed development
GO:0048481Biological Processplant ovule development
GO:0080155Biological Processregulation of double fertilization forming a zygote and endosperm
GO:2000029Biological Processregulation of proanthocyanidin biosynthetic process
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: 256 aa     Download sequence    Send to blast
MGRGKIEIKR IENATNRQVT FSKRRGGLLK KANELAVLCD ARVGVVIFSS TGKMFEYCSP  60
TCSLRELIEH YQTVTNTHFD EINHDQQIFV EMTRMRNEME KLDSGIRRFT GDDLSNLTLA  120
DINDLEQQLE FSVTKHQLLN QQLDNLRRKE HILDDQNSFL CRMINENHQA AAVGGGGGDV  180
KMVEMAPVLS MLTAAPTAYY GGEDSSSTAL QLTPPLQHVV DGGFRLQPTQ PNLQLLQADH  240
PGCSSSSFHG LQLCKG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A3e-18185183MEF2C
5f28_B3e-18185183MEF2C
5f28_C3e-18185183MEF2C
5f28_D3e-18185183MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLPERR02G04610.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1095220.0AK109522.1 Oryza sativa Japonica Group cDNA clone:002-115-F04, full insert sequence.
GenBankDQ0042660.0DQ004266.1 Oryza sativa (japonica cultivar-group) FST (FST) mRNA, complete cds.
GenBankFJ7509330.0FJ750933.1 Oryza sativa clone KCS006F06 MADS-box transcription factor 29 mRNA, complete cds.
GenBankJX0250030.0JX025003.1 Oryza sativa Japonica Group MADS-domain transcription factor variant b (FST) mRNA, complete cds, alternatively spliced.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006646941.11e-159PREDICTED: MADS-box transcription factor 29 isoform X1
RefseqXP_015689134.11e-159PREDICTED: MADS-box transcription factor 29 isoform X1
RefseqXP_015689135.11e-159PREDICTED: MADS-box transcription factor 29 isoform X2
SwissprotQ6H7111e-153MAD29_ORYSJ; MADS-box transcription factor 29
TrEMBLA0A0D9VCP30.0A0A0D9VCP3_9ORYZ; Uncharacterized protein
STRINGLPERR02G04610.10.0(Leersia perrieri)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP185037100
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G23260.12e-40MIKC_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]