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 GSBRNA2T00001444001
Common NameGSBRNA2T00001444001, LOC106416885
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: 28099.2 Da    PI: 10.3046
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00001444001genomeGenoscopeView 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++ +
  GSBRNA2T00001444001 14 KIEKEKNLQVTFCKRKNGLFKKANELCTLCNARVAIILFSPSGKIFSF 61
                         59999***************************************9987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006624.053565IPR002100Transcription factor, MADS-box
SMARTSM004327.4E-31564IPR002100Transcription factor, MADS-box
CDDcd002652.40E-33682No hitNo description
SuperFamilySSF554558.89E-27682IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-19727IPR002100Transcription factor, MADS-box
PfamPF003197.5E-251461IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-192742IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-194263IPR002100Transcription factor, MADS-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:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 249 aa     Download sequence    Send to blast
MRKTKGRQKI KMVKIEKEKN LQVTFCKRKN GLFKKANELC TLCNARVAII LFSPSGKIFS  60
FGHTKVETII DRFEKTDHPD SNTQRNMQLG EIHQNSTIRG LNNRLTEVMK NLESEQKTSE  120
ELKKLRKKSK LPEIWLKESI GGLDLGQAKE FKGKLENLKK QVIYEAFKIF LATPFPHPGF  180
YGGSSSNAPF GVDCNGNAFD NHNMVLPNHP SPFVPGFNRN MVLPSHPNPN ESGNEHPHDG  240
HPPQPRSD*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3kov_A2e-15679174Myocyte-specific enhancer factor 2A
3kov_B2e-15679174Myocyte-specific enhancer factor 2A
3kov_I2e-15679174Myocyte-specific enhancer factor 2A
3kov_J2e-15679174Myocyte-specific enhancer factor 2A
3p57_A2e-15679174Myocyte-specific enhancer factor 2A
3p57_B2e-15679174Myocyte-specific enhancer factor 2A
3p57_C2e-15679174Myocyte-specific enhancer factor 2A
3p57_D2e-15679174Myocyte-specific enhancer factor 2A
3p57_I2e-15679174Myocyte-specific enhancer factor 2A
3p57_J2e-15679174Myocyte-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
PlantRegMapGSBRNA2T00001444001
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_013713226.10.0agamous-like MADS-box protein AGL62
SwissprotQ9FKK22e-64AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBLA0A078F8400.0A0A078F840_BRANA; BnaA02g06250D protein
STRINGBra020242.1-P1e-170(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
AT5G60440.11e-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]