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 GSBRNA2T00098053001
Common NameGSBRNA2T00098053001
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: 232aa    MW: 27090.7 Da    PI: 10.836
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00098053001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF89.61.6e-28958150
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                         k+ien++ rqvtfskRr+g++KKA+ELSvLCda+va iifs++g+ly++ 
  GSBRNA2T00098053001  9 KKIENTTSRQVTFSKRRKGLFKKAHELSVLCDAQVAAIIFSQKGRLYDFT 58
                         68**********************************************97 PP
2K-box62.41.7e-21851681194
                K-box  11 eakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaL 94 
                          e+  + l++e+a + ++ie+L+  +R+l+G++L s+s+keLq++ +q++ksl  +R +K +l+ ++ie+l+ ke+el++e  +L
  GSBRNA2T00098053001  85 EQYVQGLKKEMATMVEKIEMLEVHNRKLMGQNLASCSVKELQEIATQIKKSLHIVRLRKAKLYGDEIEKLKAKERELKDERVRL 168
                          6778999***************999*****************************************************998776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.202161IPR002100Transcription factor, MADS-box
SMARTSM004327.5E-40160IPR002100Transcription factor, MADS-box
SuperFamilySSF554556.02E-31387IPR002100Transcription factor, MADS-box
CDDcd002654.93E-38373No hitNo description
PRINTSPR004041.3E-28323IPR002100Transcription factor, MADS-box
PfamPF003193.6E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-282338IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-283859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129711.96488183IPR002487Transcription factor, K-box
PfamPF014866.2E-2188171IPR002487Transcription 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: 232 aa     Download sequence    Send to blast
MVRGKIQIKK IENTTSRQVT FSKRRKGLFK KAHELSVLCD AQVAAIIFSQ KGRLYDFTSS  60
DIQKTIKRYA EYKREYFVAE SHPMEQYVQG LKKEMATMVE KIEMLEVHNR KLMGQNLASC  120
SVKELQEIAT QIKKSLHIVR LRKAKLYGDE IEKLKAKERE LKDERVRLCE RGSWLFLGCL  180
RRAPRLSSGG RSLGASRVSF EDIGISRLEK DHWGRHQAAK RKRMWKLTYR R*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A6e-20193190MEF2C
5f28_B6e-20193190MEF2C
5f28_C6e-20193190MEF2C
5f28_D6e-20193190MEF2C
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 AGL71 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
PlantRegMapGSBRNA2T00098053001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY1412211e-158AY141221.1 Arabidopsis thaliana MADS-box protein AGL72 mRNA, complete cds.
GenBankDQ4470611e-158DQ447061.1 Arabidopsis thaliana clone pENTR221-At5g51860 MADS-box protein (At5g51860) mRNA, complete cds.
GenBankDQ6533601e-158DQ653360.1 Arabidopsis thaliana clone 0000017130_0000012002 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013609700.11e-124PREDICTED: MADS-box protein SOC1-like isoform X3
RefseqXP_022560414.11e-124MADS-box protein AGL72-like isoform X2
RefseqXP_022569546.11e-124MADS-box protein AGL72-like isoform X2
SwissprotQ9FLH51e-102AGL72_ARATH; MADS-box protein AGL72
TrEMBLA0A078IPP71e-168A0A078IPP7_BRANA; BnaC09g52890D protein
STRINGBo9g103660.11e-166(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
AT5G51860.21e-105MIKC_MADS family protein
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  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]