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 GSBRNA2T00040524001
Common NameGSBRNA2T00040524001
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family M-type_MADS
Protein Properties Length: 249aa    MW: 27882.9 Da    PI: 10.2269
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00040524001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF71.38.3e-231461249
                         ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS
               SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49
                         +ie + n qvtf+kR+ng++KKA+EL++LC+a+va+i+fs++gk++ +
  GSBRNA2T00040524001 14 KIEKEKNLQVTFCKRKNGLFKKANELCTLCNARVAIILFSPSGKIFSF 61
                         59999***************************************9987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004326.3E-29564IPR002100Transcription factor, MADS-box
PROSITE profilePS5006623.212565IPR002100Transcription factor, MADS-box
CDDcd002658.93E-31682No hitNo description
SuperFamilySSF554553.27E-25681IPR002100Transcription factor, MADS-box
PRINTSPR004042.4E-18727IPR002100Transcription factor, MADS-box
PfamPF003197.5E-251461IPR002100Transcription factor, MADS-box
PRINTSPR004042.4E-182742IPR002100Transcription factor, MADS-box
PRINTSPR004042.4E-184263IPR002100Transcription factor, MADS-box
Gene3DG3DSA:3.40.30.105.0E-499158IPR012336Thioredoxin-like fold
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:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 249 aa     Download sequence    Send to blast
MRKTKGRLKT KMVKIEKEKN LQVTFCKRKN GLFKKANELC TLCNARVAII LFSPSGKIFS  60
FGHTKVETII DRFGKTDHPD SNIQSNMQLG EIHQNSTIRG LNNRLTEVMK NVESEQKTNE  120
ELKKLRKKSK LPEIWLKESI GGLDLGQAKE FKGKLENLKK QVIYEAFKSF LATPFPHPGF  180
YGGSSSNAPF GVDCNGNAFD NHNMVLPNHP SPFVPGFNHN MALPSHPNPN ESGNEHPHDG  240
HPPQPRSD*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3kov_A4e-14679174Myocyte-specific enhancer factor 2A
3kov_B4e-14679174Myocyte-specific enhancer factor 2A
3kov_I4e-14679174Myocyte-specific enhancer factor 2A
3kov_J4e-14679174Myocyte-specific enhancer factor 2A
3p57_A4e-14679174Myocyte-specific enhancer factor 2A
3p57_B4e-14679174Myocyte-specific enhancer factor 2A
3p57_C4e-14679174Myocyte-specific enhancer factor 2A
3p57_D4e-14679174Myocyte-specific enhancer factor 2A
3p57_I4e-14679174Myocyte-specific enhancer factor 2A
3p57_J4e-14679174Myocyte-specific enhancer factor 2A
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed during the syncytial endosperm development. {ECO:0000269|PubMed:18334668}.
UniprotTISSUE SPECIFICITY: Expressed in the endosperm but not in the embryo. Detected in young siliques, roots, leaves, stems, young flowers and anthers. {ECO:0000269|PubMed:18334668}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. Required for suppression of cellularization and promotion of nuclear proliferation during early endosperm development. The FERTILIZATION-INDEPENDENT SEED (FIS) polycomb complex is required for suppression of ALG62 expression at the end of the syncytial phase of endosperm development. {ECO:0000269|PubMed:18334668}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00040524001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009126601.11e-168PREDICTED: agamous-like MADS-box protein AGL62 isoform X3
SwissprotQ9FKK22e-61AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBLA0A078GTZ70.0A0A078GTZ7_BRANA; BnaC02g19360D protein
STRINGBra020242.1-P1e-167(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM1873848
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60440.18e-58AGAMOUS-like 62
Publications ? help Back to Top
  1. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  2. Xu W, et al.
    Endosperm and Nucellus Develop Antagonistically in Arabidopsis Seeds.
    Plant Cell, 2016. 28(6): p. 1343-60
    [PMID:27233529]
  3. Figueiredo DD,Batista RA,Roszak PJ,Köhler C
    Auxin production couples endosperm development to fertilization.
    Nat Plants, 2015. 1: p. 15184
    [PMID:27251719]
  4. Figueiredo DD,Batista RA,Roszak PJ,Hennig L,Köhler C
    Auxin production in the endosperm drives seed coat development in Arabidopsis.
    Elife, 2017.
    [PMID:27848912]
  5. Fiume E,Coen O,Xu W,Lepiniec L,Magnani E
    Growth of the Arabidopsis sub-epidermal integument cell layers might require an endosperm signal.
    Plant Signal Behav, 2017. 12(8): p. e1339000
    [PMID:28613109]
  6. Zhang S, et al.
    FERTILIZATION-INDEPENDENT SEED-Polycomb Repressive Complex 2 Plays a Dual Role in Regulating Type I MADS-Box Genes in Early Endosperm Development.
    Plant Physiol., 2018. 177(1): p. 285-299
    [PMID:29523711]