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 GSBRNA2T00111848001
Common NameGSBRNA2T00111848001, LOC106439083
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: 180aa    MW: 20329.9 Da    PI: 4.9203
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00111848001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF56.73e-181157349
                         --SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS
               SRF-TF  3 ienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49
                         ++++  +qvtfskRr g++KKA EL +LC+aev +++fs+ +k y y
  GSBRNA2T00111848001 11 VQDTNTKQVTFSKRRLGLFKKAGELATLCNAEVGIMVFSPGNKPYPY 57
                         6788899*********************************9998776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.4E-31160IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.09E-25173IPR002100Transcription factor, MADS-box
PROSITE profilePS5006625.175161IPR002100Transcription factor, MADS-box
CDDcd002652.98E-31276No hitNo description
PRINTSPR004041.4E-18323IPR002100Transcription factor, MADS-box
PfamPF003191.2E-201157IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-182338IPR002100Transcription factor, MADS-box
PRINTSPR004041.4E-183859IPR002100Transcription 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: 180 aa     Download sequence    Send to blast
MGRRKIKMEK VQDTNTKQVT FSKRRLGLFK KAGELATLCN AEVGIMVFSP GNKPYPYGSP  60
SFELVAERYN NESEDSDSCE TSGNGRGNRA RQEKRICKRL NSIMEQVEAE KKRGEDFEHQ  120
LETAGGEERF DKPIEELSLE ELEEYEGKMM DMLDNIQGNI SGMEVSSTLV IMSKDTQNK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A2e-17178178MEF2 CHIMERA
6byy_B2e-17178178MEF2 CHIMERA
6byy_C2e-17178178MEF2 CHIMERA
6byy_D2e-17178178MEF2 CHIMERA
6bz1_A2e-17178178MEF2 CHIMERA
6bz1_B2e-17178178MEF2 CHIMERA
6bz1_C2e-17178178MEF2 CHIMERA
6bz1_D2e-17178178MEF2 CHIMERA
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.51400.0seed
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During embryogenesis, expressed in the chalazal endosperm. {ECO:0000269|PubMed:20631316}.
UniprotTISSUE SPECIFICITY: Expressed in pollen. {ECO:0000269|PubMed:12949148}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00111848001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1892330.0AC189233.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB013O20, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009134914.11e-130PREDICTED: agamous-like MADS-box protein AGL29
RefseqXP_013735893.11e-130agamous-like MADS-box protein AGL29
SwissprotO647039e-58AGL29_ARATH; Agamous-like MADS-box protein AGL29
TrEMBLA0A398A7D71e-128A0A398A7D7_BRACM; Uncharacterized protein
TrEMBLM4CAI01e-128M4CAI0_BRARP; Uncharacterized protein
STRINGBra001209.1-P1e-129(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
AT3G66656.13e-76AGAMOUS-like 91
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. 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]