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 RrC2045_p4
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: 275aa    MW: 30137 Da    PI: 9.2934
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC2045_p4genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding322.9e-104077140
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHH CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqc 40
                     r +WT+eE++++++a +++  + Wk+I   +g  +t  q+
       RrC2045_p4 40 RESWTEEEHDKFLEALQLFDRD-WKKIEDFVG-SKTVIQV 77
                     789*****************77.*********.9999887 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466893.36E-112878IPR009057Homeodomain-like
PROSITE profilePS512939.7513882IPR017884SANT domain
TIGRFAMsTIGR015572.1E-103878IPR006447Myb domain, plants
SMARTSM007171.9E-53987IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.606.3E-63979IPR009057Homeodomain-like
PfamPF002493.9E-84077IPR001005SANT/Myb domain
CDDcd001673.57E-74279No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009651Biological Processresponse to salt stress
GO:0009723Biological Processresponse to ethylene
GO:0009733Biological Processresponse to auxin
GO:0009737Biological Processresponse to abscisic acid
GO:0009739Biological Processresponse to gibberellin
GO:0009751Biological Processresponse to salicylic acid
GO:0009753Biological Processresponse to jasmonic acid
GO:0032922Biological Processcircadian regulation of gene expression
GO:0043966Biological Processhistone H3 acetylation
GO:0046686Biological Processresponse to cadmium ion
GO:0048573Biological Processphotoperiodism, flowering
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 275 aa     Download sequence    Send to blast
MSSSPSRNPT SAEPPPSTDA VVAEGSSKKV RKPYTITKSR ESWTEEEHDK FLEALQLFDR  60
DWKKIEDFVG SKTVIQVQKN GTLAHVPPPR PKRKAAHPYP QKASKNAQMQ LQVSTTWDDA  120
SMLLNRVISP QHEHATLLGA QGTLFGHDIG PKGILNVSSP STSGVGSSSR TISGSKIVAK  180
QPPVLHGVPD FAEVYSFIGS VFDPETRLDH VEKLKEMDPI NFEAVLLLMR NLIVNLSNPE  240
FESARKALSS YEVNTKLPSV TTGSFFPNST SDKSS
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator of evening element (EE)-containing clock-controlled genes. Forms a negative feedback loop with APRR5. Regulates the pattern of histone H3 acetylation of the TOC1 promoter. {ECO:0000269|PubMed:21205033, ECO:0000269|PubMed:21474993, ECO:0000269|PubMed:21483796, ECO:0000269|PubMed:23638299}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00338DAPTransfer from AT3G09600Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Circadian-regulation. Peak of expression in the afternoon. Down-regulated by cold. {ECO:0000269|PubMed:21205033, ECO:0000269|PubMed:22902701, ECO:0000269|PubMed:23638299}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0911069e-74AY091106.1 Arabidopsis thaliana unknown protein (At3g09600) mRNA, complete cds.
GenBankAY1229699e-74AY122969.1 Arabidopsis thaliana unknown protein (At3g09600) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018434911.11e-176PREDICTED: protein REVEILLE 8-like isoform X1
RefseqXP_018434912.11e-176PREDICTED: protein REVEILLE 8-like isoform X1
RefseqXP_018434913.11e-176PREDICTED: protein REVEILLE 8-like isoform X1
SwissprotQ8RWU31e-152RVE8_ARATH; Protein REVEILLE 8
TrEMBLA0A3P5ZCW21e-168A0A3P5ZCW2_BRACM; Uncharacterized protein
STRINGBra029778.1-P1e-153(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM93032633
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G09600.11e-125MYB_related family protein
Publications ? help Back to Top
  1. Manfield IW, et al.
    Arabidopsis Co-expression Tool (ACT): web server tools for microarray-based gene expression analysis.
    Nucleic Acids Res., 2006. 34(Web Server issue): p. W504-9
    [PMID:16845059]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Fogelmark K,Troein C
    Rethinking transcriptional activation in the Arabidopsis circadian clock.
    PLoS Comput. Biol., 2014. 10(7): p. e1003705
    [PMID:25033214]
  4. Xing H, et al.
    LNK1 and LNK2 recruitment to the evening element require morning expressed circadian related MYB-like transcription factors.
    Plant Signal Behav, 2015. 10(3): p. e1010888
    [PMID:25848708]
  5. Gray JA,Shalit-Kaneh A,Chu DN,Hsu PY,Harmer SL
    The REVEILLE Clock Genes Inhibit Growth of Juvenile and Adult Plants by Control of Cell Size.
    Plant Physiol., 2017. 173(4): p. 2308-2322
    [PMID:28254761]