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 Sevir.3G050500.1.p
Organism
Setaria viridis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria
Family TALE
Protein Properties Length: 306aa    MW: 32973.1 Da    PI: 5.1397
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sevir.3G050500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox28.91.9e-092372702255
                         SSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS
            Homeobox  22 nrypsaeereeLAkklgLterqVkvWFqNrRake 55 
                          +yp++e++ +LA+ +gL+ +q+ +WF N+R ++
  Sevir.3G050500.1.p 237 WPYPTEEDKVRLAAMTGLDPKQINNWFINQRKRH 270
                         59*****************************885 PP
2ELK33.11.2e-11190211122
                 ELK   1 ELKhqLlrKYsgyLgsLkqEFs 22 
                         ELK++Ll+KYsg+L+ L++EF+
  Sevir.3G050500.1.p 190 ELKEMLLKKYSGCLSRLRSEFL 211
                         9********************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012551.8E-205296IPR005540KNOX1
PfamPF037903.0E-205494IPR005540KNOX1
SMARTSM012563.2E-25100151IPR005541KNOX2
PfamPF037912.0E-22104150IPR005541KNOX2
SMARTSM011881900109129IPR005539ELK domain
SMARTSM011883.6E-6190211IPR005539ELK domain
PfamPF037891.4E-8190211IPR005539ELK domain
PROSITE profilePS5121310.423190210IPR005539ELK domain
PROSITE profilePS5007112.681210273IPR001356Homeobox domain
SMARTSM003892.5E-14212277IPR001356Homeobox domain
SuperFamilySSF466897.7E-20212282IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.602.7E-27215275IPR009057Homeodomain-like
CDDcd000863.36E-13222274No hitNo description
PfamPF059205.1E-17230269IPR008422Homeobox KN domain
PROSITE patternPS000270248271IPR017970Homeobox, 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: 306 aa     Download sequence    Send to blast
MEDLYSIHPG ISRAGGGGSA AAASEASGVA GGAGSPPPPP PQPPPPPADL TELVKAQIAG  60
HPRYPSLLSA YIECRKVGAP PEVATLLEEI GRERRAAAAA GGEVGLDPEL DEFMEAYCGV  120
LERYKEELSR PFDEAASFLS SVRTQLSTLC GGAASLSDEM VGSSEDEPCS GDTDATDLGQ  180
EHSSRLADRE LKEMLLKKYS GCLSRLRSEF LKKRKKGKLP KDARSALMDW WNTHYRWPYP  240
TEEDKVRLAA MTGLDPKQIN NWFINQRKRH WKPSEDMRFA LMEGVTGGGS SSGTTLYFDT  300
GTIGP*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1205214LRSEFLKKRK
2211215KKRKK
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that may be involved in shoot formation during early embryogenesis. {ECO:0000269|PubMed:10488233}.
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSevir.3G050500.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF4571180.0AF457118.1 Zea mays knotted1-like homeodomain protein liguleless4a (lg4a) mRNA, complete cds.
GenBankBT0852520.0BT085252.1 Zea mays full-length cDNA clone ZM_BFb0343E20 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004960385.10.0homeobox protein knotted-1-like 10
SwissprotA2Y0071e-150KNOSA_ORYSI; Homeobox protein knotted-1-like 10
SwissprotQ7GDL51e-150KNOSA_ORYSJ; Homeobox protein knotted-1-like 10
SwissprotQ9FP291e-151KNOS1_ORYSJ; Homeobox protein knotted-1-like 1
TrEMBLA0A368QBI10.0A0A368QBI1_SETIT; Uncharacterized protein
STRINGGRMZM2G094241_P011e-178(Zea mays)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP16983892
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G23380.18e-80KNOTTED1-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. Park SH, et al.
    A Ds-insertion mutant of OSH6 (Oryza sativa Homeobox 6) exhibits outgrowth of vestigial leaf-like structures, bracts, in rice.
    Planta, 2007. 227(1): p. 1-12
    [PMID:17624547]
  7. 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]
  8. 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]
  9. 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]
  10. 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]
  11. 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]