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 GSBRNA2T00052638001
Common NameGSBRNA2T00052638001, LOC106385645
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: 220aa    MW: 25450.6 Da    PI: 9.8924
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00052638001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF90.96.6e-29959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         k+ien + rq+tfskRrng++KKA+ELSvLCda+va i+fs++g+lye+ss
  GSBRNA2T00052638001  9 KKIENRTSRQITFSKRRNGLFKKAHELSVLCDAQVAAIVFSQSGRLYEFSS 59
                         68***********************************************96 PP
2K-box59.91e-20891711597
                K-box  15 eslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 
                           +l++e++ + k+i+ L+  qR+l+G++L+s+sl +Lq L +q+eksl+ iRs+K el+ +q+ +l++ke+el ++ ++Lr++
  GSBRNA2T00052638001  89 LELKKEMDIMVKKIDLLEVHQRKLMGQGLGSCSLAQLQGLDTQIEKSLRIIRSRKAELYADQLLKLKEKERELLDQRRRLREE 171
                          57899***************************************************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.875161IPR002100Transcription factor, MADS-box
SMARTSM004327.5E-41160IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-29323IPR002100Transcription factor, MADS-box
CDDcd002651.20E-42373No hitNo description
SuperFamilySSF554552.62E-32376IPR002100Transcription factor, MADS-box
PfamPF003195.8E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-293859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129712.83188179IPR002487Transcription factor, K-box
PfamPF014865.4E-1990171IPR002487Transcription 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: 220 aa     Download sequence    Send to blast
MVRGKIEIKK IENRTSRQIT FSKRRNGLFK KAHELSVLCD AQVAAIVFSQ SGRLYEFSSS  60
EMEKTIERYG KFSPDYFVSG RPQEELYLLE LKKEMDIMVK KIDLLEVHQR KLMGQGLGSC  120
SLAQLQGLDT QIEKSLRIIR SRKAELYADQ LLKLKEKERE LLDQRRRLRE EEIRETLVRP  180
MLPVTLHTGK DETGSACRMS KHSSEVETDL FIGFPVTRL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A7e-19173173MEF2 CHIMERA
6byy_B7e-19173173MEF2 CHIMERA
6byy_C7e-19173173MEF2 CHIMERA
6byy_D7e-19173173MEF2 CHIMERA
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in the shoot apical meristem (SAM) during the vegetative phase and the floral transition. After floral transition, expressed in apical meristem (AM), inflorescence meristem (IM) and floral primordia. {ECO:0000269|PubMed:21609362}.
Functional Description ? help Back to Top
Source Description
UniProtMADS-box transcription factor that acts with AGL42 and AGL72 in the control of flowering time. Promotes flowering at the shoot apical and axillary meristems. Seems to act through a gibberellin-dependent pathway. Interacts genetically with SOC1 and its expression is directly regulated by SOC1. {ECO:0000269|PubMed:21609362}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00052638001
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_013627103.11e-158PREDICTED: MADS-box protein SOC1-like isoform X2
SwissprotQ9LT931e-105AGL71_ARATH; MADS-box protein AGL71
TrEMBLA0A078H7191e-156A0A078H719_BRANA; BnaC03g15810D protein
TrEMBLA0A0D3B3X81e-156A0A0D3B3X8_BRAOL; Uncharacterized protein
TrEMBLA0A3P6A8X21e-156A0A3P6A8X2_BRAOL; Uncharacterized protein
STRINGBo3g023570.11e-157(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
AT5G51870.37e-92AGAMOUS-like 71
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]