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 GSBRNA2T00047863001
Common NameGSBRNA2T00047863001, LOC106370798
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: 280aa    MW: 32027.1 Da    PI: 9.298
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00047863001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF70.41.6e-221662349
                         --SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS
               SRF-TF  3 ienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49
                          en+sn qvtfskRr g++KKA+EL +LC+a++a+++fs+ gk+y +
  GSBRNA2T00047863001 16 MENESNLQVTFSKRRSGLFKKASELNTLCGADIAIVVFSPGGKVYSF 62
                         79*******************************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006625.034666IPR002100Transcription factor, MADS-box
SMARTSM004327.9E-31665IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.62E-26786IPR002100Transcription factor, MADS-box
CDDcd002654.63E-34783No hitNo description
PRINTSPR004041.2E-19828IPR002100Transcription factor, MADS-box
PfamPF003191.2E-251562IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-192843IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-194364IPR002100Transcription 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: 280 aa     Download sequence    Send to blast
MAKKSKGRQR ITMAKMENES NLQVTFSKRR SGLFKKASEL NTLCGADIAI VVFSPGGKVY  60
SFGHPSVEIV LNRFKNINQP TLNQNNNMRL NEARPNDAIR VMNDFLTQVM NDLELAKKKN  120
EELKKIRKNS KMPVNWWEDP VEELDLAHAK EFKSLLEKLK SYVTDEASKH FQAIFPQPNF  180
YGGSSSGAPF RDGGYINPNL DPSERRMFNV NAYYNQNMYP PNYPLPYGNN NYAGGFVPEY  240
NLNYMHGFNQ YRNQNQNLSF KEEGISENEC HQDGPPPHL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A5e-14787282MEF2C
5f28_B5e-14787282MEF2C
5f28_C5e-14787282MEF2C
5f28_D5e-14787282MEF2C
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
PlantRegMapGSBRNA2T00047863001
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_013666237.10.0agamous-like MADS-box protein AGL62
SwissprotQ9FKK24e-93AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBLA0A078H2500.0A0A078H250_BRANA; BnaA10g13240D protein
TrEMBLA0A397XS930.0A0A397XS93_BRACM; Uncharacterized protein
STRINGBra002480.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM8628390
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60440.11e-64AGAMOUS-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]