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 RrC80_p12
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 MYB_related
Protein Properties Length: 318aa    MW: 34708.4 Da    PI: 8.6496
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC80_p12genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding53.27.1e-175094147
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47
                     r +W++eE+e++++a++++G   W+ I +++g ++t+ q++s+ qk+
        RrC80_p12 50 REKWSEEEHERFIEAIQLYGRA-WRQIQEHIG-TKTAIQIRSHAQKF 94
                     789*****************88.*********.************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466892.69E-154499IPR009057Homeodomain-like
PROSITE profilePS5129421.4194599IPR017930Myb domain
TIGRFAMsTIGR015572.2E-164897IPR006447Myb domain, plants
Gene3DG3DSA:1.10.10.603.2E-104990IPR009057Homeodomain-like
SMARTSM007172.6E-134997IPR001005SANT/Myb domain
PfamPF002495.2E-145093IPR001005SANT/Myb domain
CDDcd001671.56E-105295No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0007623Biological Processcircadian rhythm
GO:0009651Biological Processresponse to salt stress
GO:0009723Biological Processresponse to ethylene
GO:0046686Biological Processresponse to cadmium ion
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 318 aa     Download sequence    Send to blast
MAAPDRSEDV SSNVENGSCN SNEGTNHETS SDRIANAAKV RKPYTVSKQR EKWSEEEHER  60
FIEAIQLYGR AWRQIQEHIG TKTAIQIRSH AQKFFSKVAR EADSGSDGSI MIPPPRPKRK  120
PTHPYPRKSP VPYSRSPSSA MEKETKSPTS VLSAFATEDE VNRCSSPNSC TTDIQSIDKK  180
NDYAVSNQSF KEDGAVTGST PISSIMLFGK IVLVAGGSNK TSSSREGGAN HKSMTGQDSS  240
HVDTVLSLGV WETSCTGSNA YGSVTKVSGN LEKTAEPCYP VNGFRPYKRC LSEREVTSSL  300
SLVASEEEGS RRRARVCS
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor involved in phytochrome A-mediated cotyledon opening. Controlled by the central oscillator mediated by LHY and CCA1. Part of a regulatory circadian feedback loop. Regulates its own expression. {ECO:0000269|PubMed:14523250}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00146DAPTransfer from AT1G18330Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Circadian-regulation. Peak of transcript abundance near subjective dawn. Up-regulated transiently by red light and far red light. {ECO:0000269|PubMed:14523250, ECO:0000269|PubMed:19805390}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018467719.10.0PREDICTED: protein REVEILLE 7
SwissprotB3H5A81e-149RVE7_ARATH; Protein REVEILLE 7
TrEMBLA0A3N6QIK30.0A0A3N6QIK3_BRACR; Uncharacterized protein
STRINGBra025914.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM91742738
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G18330.11e-140MYB_related family protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]