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 GSBRNA2T00092702001
Common NameGSBRNA2T00092702001, LOC106393975, LOC106441133
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 MIKC_MADS
Protein Properties Length: 241aa    MW: 27506.3 Da    PI: 7.7891
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00092702001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF88.34e-28959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         kri+n++ rqvtfskRrng+lKKA+EL +LCdaev viifsstg+ly++ss
  GSBRNA2T00092702001  9 KRIDNSTSRQVTFSKRRNGLLKKAKELAILCDAEVGVIIFSSTGRLYDFSS 59
                         79***********************************************96 PP
2K-box82.87.6e-2881170998
                K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                          + +++ + +q+e+a Lk++++nLq+++R+++Ge+L+ Ls+++Lq+Le+qLe sl+ +R kK+++l+e+i+el +  + +++en +L+kk+
  GSBRNA2T00092702001  81 NPASELKFWQNEAAILKRQLHNLQENHRQMMGEELSGLSVEDLQKLENQLEMSLRDVRMKKEQMLVEEIKELNREGNLVHQENLELHKKV 170
                          678899**********************************************************************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.071161IPR002100Transcription factor, MADS-box
SMARTSM004324.3E-40160IPR002100Transcription factor, MADS-box
CDDcd002651.22E-43273No hitNo description
SuperFamilySSF554555.62E-32273IPR002100Transcription factor, MADS-box
PRINTSPR004042.1E-28323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003192.8E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004042.1E-282338IPR002100Transcription factor, MADS-box
PRINTSPR004042.1E-283859IPR002100Transcription factor, MADS-box
PfamPF014861.0E-2583170IPR002487Transcription factor, K-box
PROSITE profilePS5129715.60286176IPR002487Transcription factor, K-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:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 241 aa     Download sequence    Send to blast
MGRGKIAIKR IDNSTSRQVT FSKRRNGLLK KAKELAILCD AEVGVIIFSS TGRLYDFSSS  60
SMKSVIERYR DAKCDTNSEM NPASELKFWQ NEAAILKRQL HNLQENHRQM MGEELSGLSV  120
EDLQKLENQL EMSLRDVRMK KEQMLVEEIK ELNREGNLVH QENLELHKKV NLMHQQHMEL  180
HKKVSEVESV KSADKISLLT NGLDMGGNSS EHVHLQLSQP QQHDETSSKA IQLSYFSFIA  240
*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-19169169MEF2C
5f28_B2e-19169169MEF2C
5f28_C2e-19169169MEF2C
5f28_D2e-19169169MEF2C
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.246106e-91leaf
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed at high levels in leaves, moderate levels in roots, seedlings and stems, and at low levels in flowers, pollen and siliques. Accumulates in leaf guard cells and trichomes. Also present in epidermal cells of roots (PubMed:11115127, PubMed:12837945, PubMed:12949148). Expressed in mature guard cells (PubMed:17704216). {ECO:0000269|PubMed:11115127, ECO:0000269|PubMed:12837945, ECO:0000269|PubMed:12949148, ECO:0000269|PubMed:17704216}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the regulation of flowering time in long-day photoperiod. Participates in the repression of FT expression and floral transition, by interacting closely with the FLC-SVP pathways (PubMed:24876250). Functions in the satellite meristemoid lineage of stomatal development (PubMed:17704216). {ECO:0000269|PubMed:17704216, ECO:0000269|PubMed:24876250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00092702001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by the micro RNA miR824. {ECO:0000269|PubMed:18579782}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0300460.0BT030046.1 Arabidopsis thaliana At3g57230 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009138271.11e-176PREDICTED: agamous-like MADS-box protein AGL16
RefseqXP_013738394.11e-176agamous-like MADS-box protein AGL16
RefseqXP_022571931.11e-176agamous-like MADS-box protein AGL16
SwissprotA2RVQ51e-147AGL16_ARATH; Agamous-like MADS-box protein AGL16
TrEMBLA0A078IH391e-175A0A078IH39_BRANA; BnaA03g51000D protein
TrEMBLA0A397L3M61e-175A0A397L3M6_BRACM; Uncharacterized protein
TrEMBLM4DMA61e-175M4DMA6_BRARP; Uncharacterized protein
STRINGBra017638.1-P1e-175(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM53024105
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G57230.11e-149AGAMOUS-like 16
Publications ? help Back to Top
  1. Yang K,Jiang M,Le J
    A new loss-of-function allele 28y reveals a role of ARGONAUTE1 in limiting asymmetric division of stomatal lineage ground cell.
    J Integr Plant Biol, 2014. 56(6): p. 539-49
    [PMID:24386951]
  2. 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]