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 OMERI05G02200.3
Organism
Oryza meridionalis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family TALE
Protein Properties Length: 299aa    MW: 32537.4 Da    PI: 5.0101
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OMERI05G02200.3genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox28.82.1e-092322652255
                      SSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS
         Homeobox  22 nrypsaeereeLAkklgLterqVkvWFqNrRake 55 
                       +yp++e++ +LA+ +gL+ +q+ +WF N+R ++
  OMERI05G02200.3 232 WPYPTEEDKVRLAAMTGLDPKQINNWFINQRKRH 265
                      59*****************************885 PP
2ELK33.21.2e-11185206122
              ELK   1 ELKhqLlrKYsgyLgsLkqEFs 22 
                      ELK++Ll+KYsg+L+ L++EF+
  OMERI05G02200.3 185 ELKEMLLKKYSGCLSRLRSEFL 206
                      9********************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012558.8E-194286IPR005540KNOX1
PfamPF037901.9E-194483IPR005540KNOX1
SMARTSM012564.0E-2792143IPR005541KNOX2
PfamPF037912.6E-2396142IPR005541KNOX2
SMARTSM011883.6E-6185206IPR005539ELK domain
PfamPF037891.4E-8185206IPR005539ELK domain
PROSITE profilePS5121310.423185205IPR005539ELK domain
PROSITE profilePS5007112.681205268IPR001356Homeobox domain
SuperFamilySSF466898.13E-20207276IPR009057Homeodomain-like
SMARTSM003892.5E-14207272IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.602.6E-27210270IPR009057Homeodomain-like
CDDcd000863.08E-13217269No hitNo description
PfamPF059204.9E-17225264IPR008422Homeobox KN domain
PROSITE patternPS000270243266IPR017970Homeobox, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 299 aa     Download sequence    Send to blast
MEDLYSIHPG ISRGGGGGGG GGSSPPHPPP PATTAAAADL TELMKAQIAG HPSYPSLLSA  60
YIECRKVGAP PEVTTLLEEI SREERGGGGA TAGGEIGLDP ELDEFMETYC RVLERYKEEL  120
TRPFDEAASF LTGIHTQLAS LCGGAPPPTD NSDEMVGSSD DEPCSGDADA SDFGQEHSSR  180
LADHELKEML LKKYSGCLSR LRSEFLKKRK KGKLPKDARS ALMDWWNTHY RWPYPTEEDK  240
VRLAAMTGLD PKQINNWFIN QRKRHWKPSE DMRFALMEGV TGGSSSGTTL YFDTGTIGP
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1200209LRSEFLKKRK
2206210KKRKK
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that may be involved in shoot formation during embryogenesis. {ECO:0000269|PubMed:10080693}.
UniProtProbable transcription factor that may be involved in shoot formation during embryogenesis. {ECO:0000269|PubMed:10080693, ECO:0000269|PubMed:10488233}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0076240.0AB007624.1 Oryza sativa Japonica Group HOS9 mRNA, partial cds.
GenBankAB0288850.0AB028885.1 Oryza sativa mRNA for knotted1-type homeobox protein OSH71, complete cds.
GenBankAF0501800.0AF050180.1 Oryza sativa strain Indica IR58 KNOX class homeodomain protein (Oskn2) mRNA, complete cds.
GenBankAK1118780.0AK111878.1 Oryza sativa Japonica Group cDNA clone:J033046I12, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015637898.11e-169homeobox protein knotted-1-like 10
SwissprotA2Y0071e-170KNOSA_ORYSI; Homeobox protein knotted-1-like 10
SwissprotQ7GDL51e-170KNOSA_ORYSJ; Homeobox protein knotted-1-like 10
TrEMBLA0A0E0DLJ10.0A0A0E0DLJ1_9ORYZ; Uncharacterized protein
STRINGOMERI05G02170.20.0(Oryza meridionalis)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G23380.15e-79KNOTTED1-like homeobox gene 6
Publications ? help Back to Top
  1. Ito Y,Eiguchi M,Kurata N
    KNOX homeobox genes are sufficient in maintaining cultured cells in an undifferentiated state in rice.
    Genesis, 2001. 30(4): p. 231-8
    [PMID:11536429]
  2. Postma-Haarsma AD, et al.
    Developmental regulation and downstream effects of the knox class homeobox genes Oskn2 and Oskn3 from rice.
    Plant Mol. Biol., 2002. 48(4): p. 423-41
    [PMID:11908517]
  3. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  4. Kuijt SJ, et al.
    Different subcellular localization and trafficking properties of KNOX class 1 homeodomain proteins from rice.
    Plant Mol. Biol., 2004. 55(6): p. 781-96
    [PMID:15604716]
  5. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]
  6. Chu H, et al.
    A CLE-WOX signalling module regulates root meristem maintenance and vascular tissue development in rice.
    J. Exp. Bot., 2013. 64(17): p. 5359-69
    [PMID:24043854]
  7. Kuijt SJ, et al.
    Interaction between the GROWTH-REGULATING FACTOR and KNOTTED1-LIKE HOMEOBOX families of transcription factors.
    Plant Physiol., 2014. 164(4): p. 1952-66
    [PMID:24532604]
  8. Coudert Y, et al.
    Identification of CROWN ROOTLESS1-regulated genes in rice reveals specific and conserved elements of postembryonic root formation.
    New Phytol., 2015. 206(1): p. 243-54
    [PMID:25442012]
  9. Xu Y, et al.
    OsARID3, an AT-rich Interaction Domain-containing protein, is required for shoot meristem development in rice.
    Plant J., 2015. 83(5): p. 806-17
    [PMID:26121094]
  10. Kir G, et al.
    RNA Interference Knockdown of BRASSINOSTEROID INSENSITIVE1 in Maize Reveals Novel Functions for Brassinosteroid Signaling in Controlling Plant Architecture.
    Plant Physiol., 2015. 169(1): p. 826-39
    [PMID:26162429]