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 RrC15252_p1
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family MIKC_MADS
Protein Properties Length: 130aa    MW: 15268.9 Da    PI: 10.186
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC15252_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF71.47.9e-23947139
                 S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEE CS
       SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevavii 39
                 krien + rqvtfskRr+g++KKA+ELSvLCda+va i 
  RrC15252_p1  9 KRIENLTSRQVTFSKRRKGLFKKAHELSVLCDAQVAAIK 47
                 79*********************************9885 PP
2K-box50.87.3e-1866129972
        K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnel 72 
                  ++++  ++l++e+  + ++ie Lq   R+l+G+dL+s+s++eL+++ +++eksl+++Rs+K ++
  RrC15252_p1  66 QKQQYVQELKNEMVIMMDKIELLQLHSRKLMGQDLDSCSVEELNEISTKIEKSLTNVRSRKIKM 129
                  6778889*****************999**********************************875 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006625.091146IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.49E-22146IPR002100Transcription factor, MADS-box
SMARTSM004326.8E-27154IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-20323IPR002100Transcription factor, MADS-box
PfamPF003194.6E-201046IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-202338IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-203859IPR002100Transcription factor, MADS-box
PfamPF014866.2E-1567127IPR002487Transcription factor, K-box
PROSITE profilePS5129710.03571130IPR002487Transcription 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: 130 aa     Download sequence    Send to blast
MVRGKIEIKR IENLTSRQVT FSKRRKGLFK KAHELSVLCD AQVAAIKMIE RCEIQRNEYT  60
GAENLQKQQY VQELKNEMVI MMDKIELLQL HSRKLMGQDL DSCSVEELNE ISTKIEKSLT  120
NVRSRKIKMR
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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2325422e-39AC232542.1 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_018466616.11e-82PREDICTED: MADS-box protein AGL72-like, partial
SwissprotQ9FLH51e-50AGL72_ARATH; MADS-box protein AGL72
TrEMBLA0A078IVV55e-72A0A078IVV5_BRANA; BnaA01g35210D protein
TrEMBLA0A398AM494e-72A0A398AM49_BRACM; Uncharacterized protein
STRINGBra013891.1-P2e-72(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
AT5G51860.24e-53MIKC_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]