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 GSBRNA2T00020288001
Common NameGSBRNA2T00020288001
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: 205aa    MW: 23362.8 Da    PI: 7.4107
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00020288001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF931.4e-29959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krienk+ rq+tfskRr+g+lKKA+ELSvLCda+va i+fs++gklye++s
  GSBRNA2T00020288001  9 KRIENKTSRQITFSKRRKGLLKKAHELSVLCDAQVAAIVFSQKGKLYEFAS 59
                         79***********************************************86 PP
2K-box52.32.5e-1883156982
                K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqk 82 
                          +ee + + l++e++ + + ie Lq   R+l+G+dL+s+s+ eL+++  q+eksl+ iRs+K ++  e++ +l+ 
  GSBRNA2T00020288001  83 QEEDDVQDLKNEVTVMVNSIELLQLHCRKLMGQDLGSCSVDELNKITIQIEKSLTLIRSRKAKVHEEEVGKLKA 156
                          678899******************999*****************************************999986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.917161IPR002100Transcription factor, MADS-box
SMARTSM004324.0E-41160IPR002100Transcription factor, MADS-box
SuperFamilySSF554556.28E-31370IPR002100Transcription factor, MADS-box
PRINTSPR004048.4E-31323IPR002100Transcription factor, MADS-box
CDDcd002652.12E-39367No hitNo description
PfamPF003192.2E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004048.4E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004048.4E-313859IPR002100Transcription factor, MADS-box
PfamPF014862.0E-1783161IPR002487Transcription factor, K-box
PROSITE profilePS5129710.52588189IPR002487Transcription 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: 205 aa     Download sequence    Send to blast
MVRGKIEIKR IENKTSRQIT FSKRRKGLLK KAHELSVLCD AQVAAIVFSQ KGKLYEFASS  60
DMKKMMEQCE IYRSGYFHAE RLQEEDDVQD LKNEVTVMVN SIELLQLHCR KLMGQDLGSC  120
SVDELNKITI QIEKSLTLIR SRKAKVHEEE VGKLKAEFEE KPLWMQSRSL ESENNASSSS  180
SAFENMNISD VETDLCIGLP RSQV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A5e-19166166MEF2C
5f28_B5e-19166166MEF2C
5f28_C5e-19166166MEF2C
5f28_D5e-19166166MEF2C
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
PlantRegMapGSBRNA2T00020288001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2325424e-63AC232542.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH005L20, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009136477.11e-132PREDICTED: MADS-box protein AGL71-like
RefseqXP_009136478.11e-132PREDICTED: MADS-box protein AGL71-like
RefseqXP_009136479.11e-132PREDICTED: MADS-box protein AGL71-like
RefseqXP_022572404.11e-132MADS-box protein AGL71-like
SwissprotQ9LT932e-65AGL71_ARATH; MADS-box protein AGL71
TrEMBLA0A078IY451e-147A0A078IY45_BRANA; BnaC07g49900D protein
STRINGBra012957.1-P1e-124(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM88051235
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G51860.28e-67MIKC_MADS family protein
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]