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 RrC476_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 TALE
Protein Properties Length: 328aa    MW: 37067.8 Da    PI: 7.2832
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC476_p4genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox22.42.1e-072783102254
                SSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHH CS
   Homeobox  22 nrypsaeereeLAkklgLterqVkvWFqNrRak 54 
                 +yp+++++++L +++gL+ +q+ +WF N+R +
  RrC476_p4 278 WPYPTEDDKAKLVEETGLQLKQINNWFINQRKR 310
                58*****************************87 PP
2ELK22.52.6e-08231252122
        ELK   1 ELKhqLlrKYsgyLgsLkqEFs 22 
                ELK +L++++++++ ++++E++
  RrC476_p4 231 ELKLELKQGFKSRIEDVREEIM 252
                9********************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012556.4E-1963107IPR005540KNOX1
PfamPF037902.3E-1665106IPR005540KNOX1
SMARTSM012565.1E-25117172IPR005541KNOX2
PfamPF037913.3E-19121171IPR005541KNOX2
PROSITE profilePS512139.202231251IPR005539ELK domain
PROSITE profilePS5007111.839251314IPR001356Homeobox domain
SuperFamilySSF466892.87E-16253317IPR009057Homeodomain-like
SMARTSM003895.3E-11253318IPR001356Homeobox domain
CDDcd000861.94E-11254315No hitNo description
Gene3DG3DSA:1.10.10.605.9E-25258315IPR009057Homeodomain-like
PfamPF059203.8E-18271310IPR008422Homeobox KN domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010089Biological Processxylem development
GO:0010192Biological Processmucilage biosynthetic process
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:2000652Biological Processregulation of secondary cell wall biogenesis
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 328 aa     Download sequence    Send to blast
IRTLISSILS NRTTKIRSKN QGFQDNTEFR SPSSIKNMQE AALGMIVGGG GEGDAAVAAE  60
QNRQMKGEIA THPMYEQLLA AHVACLRVAT PIDQLPIIEA QLSHSHHLLR SYASTAVGFS  120
HHDRQELDNF LAQYVMVLCS FKEQLQQHVR VHAVEAVMAC REIENNLHSL TGATLGEGSG  180
ATMSEDEDDL HMDFSSDNSG IDFSGGHDMT GFGPLLPTES ERSLMERVRQ ELKLELKQGF  240
KSRIEDVREE IMRKRRAGKL PGDTTTVLKN WWQQHCKWPY PTEDDKAKLV EETGLQLKQI  300
NNWFINQRKR NWHSNSHSLT SLKSKRKH
Functional Description ? help Back to Top
Source Description
UniProtMay be involved in secondary cell wall biosynthesis. {ECO:0000269|PubMed:15980264}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankZ290730.0Z29073.1 B.napus hd1 mRNA for homeodomain-containing protein.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018452890.10.0PREDICTED: homeobox protein HD1
SwissprotQ9FPQ80.0KNAT7_ARATH; Homeobox protein knotted-1-like 7
TrEMBLA0A0D3E3T30.0A0A0D3E3T3_BRAOL; Uncharacterized protein
STRINGBo9g028790.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM44428158
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G62990.10.0KNOTTED-like homeobox of Arabidopsis thaliana 7
Publications ? help Back to Top
  1. Srinivasasainagendra V,Page GP,Mehta T,Coulibaly I,Loraine AE
    CressExpress: a tool for large-scale mining of expression data from Arabidopsis.
    Plant Physiol., 2008. 147(3): p. 1004-16
    [PMID:18467456]
  2. Heyndrickx KS,Vandepoele K
    Systematic identification of functional plant modules through the integration of complementary data sources.
    Plant Physiol., 2012. 159(3): p. 884-901
    [PMID:22589469]
  3. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  4. He JB, et al.
    KNAT7 positively regulates xylan biosynthesis by directly activating IRX9 expression in Arabidopsis.
    J Integr Plant Biol, 2018. 60(6): p. 514-528
    [PMID:29393579]