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 Rsa1.0_01707.1_g00007.1
Organism
Raphanus sativus
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: 200aa    MW: 22723.3 Da    PI: 9.3689
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_01707.1_g00007.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF70.61.4e-22956148
                             S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEE CS
                   SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklye 48
                             krienks rqvtf+kRrng++ KA  LS+LC+  vav+i+sstgk+y 
  Rsa1.0_01707.1_g00007.1  9 KRIENKSSRQVTFCKRRNGLMEKARQLSILCGSSVAVLIVSSTGKVYS 56
                             79********************************************96 PP
2K-box34.49.2e-13851641698
                    K-box  16 slqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                              + ++++  Lk+ +e  q +   l   +++++sl+ L +Le+q +++l+  R++K+el++e +++ q+kek l+een+ L  +l
  Rsa1.0_01707.1_g00007.1  85 EKTRNYLSLKELLEPVQGK---LEEANIDNISLESLISLEEQFKTALSLTRARKTELMMELVKTFQEKEKLLREENTILAGQL 164
                              5555666666666666654...6667899************************************************998776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006627.698161IPR002100Transcription factor, MADS-box
SMARTSM004321.0E-32160IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.06E-25173IPR002100Transcription factor, MADS-box
CDDcd002651.11E-30271No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004043.3E-22323IPR002100Transcription factor, MADS-box
PfamPF003192.1E-221056IPR002100Transcription factor, MADS-box
PRINTSPR004043.3E-222338IPR002100Transcription factor, MADS-box
PRINTSPR004043.3E-223859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129710.87180170IPR002487Transcription factor, K-box
PfamPF014862.3E-8106164IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009910Biological Processnegative regulation of flower development
GO:0010221Biological Processnegative regulation of vernalization response
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: 200 aa     Download sequence    Send to blast
MGRRKMEIKR IENKSSRQVT FCKRRNGLME KARQLSILCG SSVAVLIVSS TGKVYSSSSG  60
DSMAKILKHY EVRHADELKT LDLKEKTRNY LSLKELLEPV QGKLEEANID NISLESLISL  120
EEQFKTALSL TRARKTELMM ELVKTFQEKE KLLREENTIL AGQLAKTGKE NEFLETEGER  180
AMLLDYNSGS NPPETLPLLK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A6e-16180180MEF2C
5f28_B6e-16180180MEF2C
5f28_C6e-16180180MEF2C
5f28_D6e-16180180MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that prevents vernalization by short periods of cold. Acts as a floral repressor. {ECO:0000269|PubMed:12724541, ECO:0000269|PubMed:19139056, ECO:0000269|PubMed:20551443}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_01707.1_g00007.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Requires EARLY FLOWERING 7 (ELF7) and ELF8 to be expressed. Up-regulated by HUA2. {ECO:0000269|PubMed:15520273, ECO:0000269|PubMed:15659097}.
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_018493416.11e-142PREDICTED: protein MADS AFFECTING FLOWERING 5-like
SwissprotQ9FPN76e-89AGL31_ARATH; Agamous-like MADS-box protein AGL31
TrEMBLM4E6E71e-118M4E6E7_BRARP; Uncharacterized protein
STRINGBra024351.1-P1e-119(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM9861987
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G65070.17e-86MIKC_MADS family protein
Publications ? help Back to Top
  1. Suter L,Rüegg M,Zemp N,Hennig L,Widmer A
    Gene regulatory variation mediates flowering responses to vernalization along an altitudinal gradient in Arabidopsis.
    Plant Physiol., 2014. 166(4): p. 1928-42
    [PMID:25339407]