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 GSBRNA2T00059241001
Common NameGSBRNA2T00059241001
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: 90aa    MW: 10371.3 Da    PI: 11.1388
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00059241001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF93.97.5e-301058250
                         ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
               SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                         rienk++rqvtfskRr+g+ KKA+E+SvLCda+va+i+fs++gkl+eys
  GSBRNA2T00059241001 10 RIENKIRRQVTFSKRRTGLVKKAQEISVLCDADVALIVFSPKGKLFEYS 58
                         8***********************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004325.3E-37160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006630.6161IPR002100Transcription factor, MADS-box
CDDcd002651.26E-32261No hitNo description
SuperFamilySSF554557.06E-29282IPR002100Transcription factor, MADS-box
PRINTSPR004043.9E-29323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.5E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004043.9E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004043.9E-293859IPR002100Transcription 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: 90 aa     Download sequence    Send to blast
MGRGRVQLRR IENKIRRQVT FSKRRTGLVK KAQEISVLCD ADVALIVFSP KGKLFEYSAG  60
SRFEFLQELL LNLLLRKRSH IYSCLPTYI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A7e-18159159MEF2C
5f28_B7e-18159159MEF2C
5f28_C7e-18159159MEF2C
5f28_D7e-18159159MEF2C
6bz1_A7e-18159159MEF2 CHIMERA
6bz1_B7e-18159159MEF2 CHIMERA
6bz1_C7e-18159159MEF2 CHIMERA
6bz1_D7e-18159159MEF2 CHIMERA
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.267904e-80leaf| root
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in tendrils and flowers. {ECO:0000269|PubMed:15247405}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in flower development. {ECO:0000250|UniProtKB:Q0HA25}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00059241001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0013144e-70AP001314.1 Arabidopsis thaliana genomic DNA, chromosome 3, BAC clone:T6J22.
GenBankCP0026864e-70CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009129675.14e-36PREDICTED: truncated transcription factor CAULIFLOWER A-like
RefseqXP_013619388.15e-36PREDICTED: truncated transcription factor CAULIFLOWER A-like isoform X2
SwissprotQ6E6S71e-30AP1_VITVI; Agamous-like MADS-box protein AP1
TrEMBLA0A078HDI92e-57A0A078HDI9_BRANA; BnaC02g38130D protein
STRINGBo2g149440.12e-35(Brassica oleracea)
STRINGBo7g088660.14e-36(Brassica oleracea)
STRINGXP_010425772.12e-35(Camelina sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM7828413
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G30260.12e-38AGAMOUS-like 79
Publications ? help Back to Top
  1. Jaillon O, et al.
    The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.
    Nature, 2007. 449(7161): p. 463-7
    [PMID:17721507]
  2. Díaz-Riquelme J,Lijavetzky D,Martínez-Zapater JM,Carmona MJ
    Genome-wide analysis of MIKCC-type MADS box genes in grapevine.
    Plant Physiol., 2009. 149(1): p. 354-69
    [PMID:18997115]
  3. 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]
  4. Grimplet J,Martínez-Zapater JM,Carmona MJ
    Structural and functional annotation of the MADS-box transcription factor family in grapevine.
    BMC Genomics, 2016. 17: p. 80
    [PMID:26818751]