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 Seita.9G321500.1.p
Common NameLOC101777284, SETIT_036388mg
Organism
Setaria italica
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 HD-ZIP
Protein Properties Length: 353aa    MW: 37940.9 Da    PI: 8.7793
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Seita.9G321500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox50.24.4e-16176235256
                         T--SS--HHHHHHHHHHHHHSSS--H.....HHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
            Homeobox   2 rkRttftkeqleeLeelFeknrypsa.....eereeLAkklgLterqVkvWFqNrRakek 56 
                         rk+ +++k+q  +Lee F+++++++      ++++ LAk+l+L+ rqV vWFqNrRa+ k
  Seita.9G321500.1.p 176 RKKLRLSKDQAAVLEESFKEHNTLNPvrtlpKQKAALAKQLNLKPRQVEVWFQNRRARTK 235
                         788899*************999988533444899************************98 PP
2HD-ZIP_I/II118.83e-38176270191
         HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLep.....erKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekevee 86 
                         +kk+rlsk+q+++LEesF+e+++L+p     ++K++la++L+l+prqv+vWFqnrRARtk+kq+E+d+e+Lkr++++l+een+rL++ev+e
  Seita.9G321500.1.p 176 RKKLRLSKDQAAVLEESFKEHNTLNPvrtlpKQKAALAKQLNLKPRQVEVWFQNRRARTKLKQTEVDCEFLKRCCETLTEENRRLQREVAE 266
                         69**********************964444489********************************************************** PP

         HD-ZIP_I/II  87 Lreel 91 
                         Lr +l
  Seita.9G321500.1.p 267 LR-AL 270
                         *9.55 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046182.0E-2619145IPR006712HD-ZIP protein, N-terminal
Gene3DG3DSA:1.10.10.602.0E-16161231IPR009057Homeodomain-like
SuperFamilySSF466893.08E-15166238IPR009057Homeodomain-like
PROSITE profilePS5007115.143172237IPR001356Homeobox domain
SMARTSM003894.6E-12174241IPR001356Homeobox domain
PfamPF000461.9E-13176235IPR001356Homeobox domain
CDDcd000867.27E-15176238No hitNo description
PROSITE patternPS000270212235IPR017970Homeobox, conserved site
SMARTSM003408.8E-23237280IPR003106Leucine zipper, homeobox-associated
PfamPF021831.5E-10237271IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 353 aa     Download sequence    Send to blast
MEMAVNARDR EQHGHGGLGL GLSLSLSIAT AAPPPQQQRA ISVAPISSHP APPVPPQPQW  60
WNGGAGLFFS PSSGMVDRSM ERKLQQQPAV AAACHGHEMP FLRGIDVNRA PAAGESRRGC  120
CSEDEEPAAS SPNSTLSSLS GKRPAATRSG DLEGDHTPRA GGASDDEDSG AGGGSRKKLR  180
LSKDQAAVLE ESFKEHNTLN PVRTLPKQKA ALAKQLNLKP RQVEVWFQNR RARTKLKQTE  240
VDCEFLKRCC ETLTEENRRL QREVAELRAL KLVAPHQYAR MPPPTTLTMC PSCERLATAD  300
EAGRAARPAA PTGPWGPVPV RPVFVDGMII DADARPEHPN SGGPVVVEKK SW*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1174180SRKKLRL
2229237RRARTKLKQ
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription repressor involved leaf development. Binds to the DNA sequence 5'-CAAT[GC]ATTG-3'. May act as a regulatory switch to specify provascular cell fate. {ECO:0000269|PubMed:10732669, ECO:0000269|PubMed:10934011, ECO:0000269|PubMed:9076993}.
UniProtProbable transcription repressor involved leaf development. Binds to the DNA sequence 5'-CAAT[GC]ATTG-3'. May act as a regulatory switch to specify provascular cell fate. {ECO:0000269|PubMed:10732669, ECO:0000269|PubMed:9076993}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSeita.9G321500.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin and sucrose in primary root apical region. By wounding in leaves. {ECO:0000269|PubMed:10732669}.
UniProtINDUCTION: By auxin and sucrose in primary root apical region. By wounding in leaves. {ECO:0000269|PubMed:10934011}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEU9424521e-177EU942452.1 Zea mays clone 1503625 mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012697997.10.0homeobox-leucine zipper protein HOX1 isoform X1
SwissprotQ406917e-81HOX1_ORYSI; Homeobox-leucine zipper protein HOX1
SwissprotQ7XC547e-81HOX1_ORYSJ; Homeobox-leucine zipper protein HOX1
TrEMBLK4ABY10.0K4ABY1_SETIT; Uncharacterized protein
STRINGSi036388m0.0(Setaria italica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP25873889
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G16780.13e-62homeobox protein 2
Publications ? help Back to Top
  1. Scarpella E,Boot KJ,Rueb S,Meijer AH
    The procambium specification gene Oshox1 promotes polar auxin transport capacity and reduces its sensitivity toward inhibition.
    Plant Physiol., 2002. 130(3): p. 1349-60
    [PMID:12428000]
  2. Scarpella E,Rueb S,Meijer AH
    The RADICLELESS1 gene is required for vascular pattern formation in rice.
    Development, 2003. 130(4): p. 645-58
    [PMID:12505996]
  3. Rice Chromosome 10 Sequencing Consortium
    In-depth view of structure, activity, and evolution of rice chromosome 10.
    Science, 2003. 300(5625): p. 1566-9
    [PMID:12791992]
  4. 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]
  5. Scarpella E,Simons EJ,Meijer AH
    Multiple regulatory elements contribute to the vascular-specific expression of the rice HD-Zip gene Oshox1 in Arabidopsis.
    Plant Cell Physiol., 2005. 46(8): p. 1400-10
    [PMID:15964905]
  6. Meijer AH,Ouwerkerk PB,Hoge JH
    Vectors for transcription factor cloning and target site identification by means of genetic selection in yeast.
    Yeast, 1998. 14(15): p. 1407-15
    [PMID:9848232]