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 GSBRNA2T00142938001
Common NameGSBRNA2T00142938001
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: 71aa    MW: 7920.33 Da    PI: 11.9932
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00142938001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF89.81.4e-281058250
                         ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
               SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                         rienk++rqvtfskRr+g+ KK +E+SvLCda+va+i+fs++gkl+eys
  GSBRNA2T00142938001 10 RIENKIRRQVTFSKRRTGLVKKVQEISVLCDADVALIVFSPKGKLFEYS 58
                         8***********************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006629.927161IPR002100Transcription factor, MADS-box
SMARTSM004327.7E-36160IPR002100Transcription factor, MADS-box
SuperFamilySSF554559.29E-28266IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-28323IPR002100Transcription factor, MADS-box
PfamPF003195.6E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-282338IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-283859IPR002100Transcription 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: 71 aa     Download sequence    Send to blast
MGRGRVQLRR IENKIRRQVT FSKRRTGLVK KVQEISVLCD ADVALIVFSP KGKLFEYSAG  60
SRLRQVVGSS *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A5e-18159159MEF2C
5f28_B5e-18159159MEF2C
5f28_C5e-18159159MEF2C
5f28_D5e-18159159MEF2C
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.267906e-85leaf| 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
PlantRegMapGSBRNA2T00142938001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0013148e-68AP001314.1 Arabidopsis thaliana genomic DNA, chromosome 3, BAC clone:T6J22.
GenBankAY1412388e-68AY141238.1 Arabidopsis thaliana MADS-box protein AGL79 mRNA, complete cds.
GenBankCP0026868e-68CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009151758.15e-36PREDICTED: truncated transcription factor CAULIFLOWER A
RefseqXP_018481832.15e-36PREDICTED: truncated transcription factor CAULIFLOWER A-like
RefseqXP_022544001.16e-36truncated transcription factor CAULIFLOWER A-like
RefseqXP_022561302.16e-36truncated transcription factor CAULIFLOWER A-like
RefseqXP_022561335.16e-36truncated transcription factor CAULIFLOWER A-like
SwissprotD7SMN63e-30FULL_VITVI; Agamous-like MADS-box protein FUL-L
TrEMBLA0A0D3DBL22e-41A0A0D3DBL2_BRAOL; Uncharacterized protein
STRINGBo7g088660.13e-42(Brassica oleracea)
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
AT3G30260.13e-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]