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 Solyc09g011380.2.1
Common NameLOC101245390
Organism
Solanum lycopersicum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
Family TALE
Protein Properties Length: 505aa    MW: 55977.5 Da    PI: 7.8888
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc09g011380.2.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox28.91.9e-093013332254
                         SSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHH CS
            Homeobox  22 nrypsaeereeLAkklgLterqVkvWFqNrRak 54 
                         ++yp+ +++  LAk++gL+ +qV++WF N R +
  Solyc09g011380.2.1 301 HPYPTDTDKVMLAKQTGLSRNQVSNWFINARVR 333
                         89*****************************88 PP
2BELL104.19.8e-34173241472
                BELL   4 elqkkkakLlslleeVdkrYkqyveqlqtvissFeavaglgsakpYtslAlkaiSrhFrcLkdaiaeqi 72 
                         +  kkk++L+s+l+eV+++Ykqy+eqlq+v++sFe vaglg+a+p++++A k++S+hF+cLkdai++q+
  Solyc09g011380.2.1 173 QFGKKKSRLISMLDEVYHKYKQYHEQLQMVVASFESVAGLGNAAPFANVAIKTMSKHFKCLKDAIIDQL 241
                         5679**************************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005744.7E-43118239IPR006563POX domain
PfamPF075263.1E-34123237IPR006563POX domain
PROSITE profilePS5007111.953274337IPR001356Homeobox domain
SMARTSM003898.6E-10277341IPR001356Homeobox domain
CDDcd000863.48E-12277338No hitNo description
SuperFamilySSF466893.64E-17279343IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.601.6E-27280341IPR009057Homeodomain-like
PfamPF059201.1E-18294333IPR008422Homeobox KN domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010051Biological Processxylem and phloem pattern formation
GO:0010076Biological Processmaintenance of floral meristem identity
GO:0010077Biological Processmaintenance of inflorescence meristem identity
GO:0010089Biological Processxylem development
GO:0010154Biological Processfruit development
GO:0010223Biological Processsecondary shoot formation
GO:0010228Biological Processvegetative to reproductive phase transition of meristem
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048457Biological Processfloral whorl morphogenesis
GO:0048645Biological Processorgan formation
GO:0080006Biological Processinternode patterning
GO:0005634Cellular Componentnucleus
GO:0005829Cellular Componentcytosol
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 505 aa     Download sequence    Send to blast
MAEGFEPYHV PQQSRRDKLR VLLDENNNSN CQIPPLYDPS IVLSSDLSIF QEINGNPFLY  60
TSQIPRFLDH NNTNTNSNSN SNGQGNLSLS LSSLHNNDLS SSKSITTTTS CVPLGPFTGY  120
SSILKRSKFL KPAQILLDEL CHVTKGIYVD DSNDDASNLM MDTPQGFTNG EEQFGKKKSR  180
LISMLDEVYH KYKQYHEQLQ MVVASFESVA GLGNAAPFAN VAIKTMSKHF KCLKDAIIDQ  240
LQFTTRKSSH GQINCERGVG ISGKGIYCQR QETQPVWRPQ RGLPERAVTV LRAWLFDHFL  300
HPYPTDTDKV MLAKQTGLSR NQVSNWFINA RVRLWKPMVE EIHMLETREG HNKSSSHREG  360
PNNNNNNDSN NPIEHFPMSN SNACESNTPS TSTSRLQDLP SKRTRNELTN IPNNIGRIAD  420
SINLSYGNLS TGVGGGVSLT LGLHQNSGNI GLSEPFPMNA ARRFGIDSST SSGRVIFGGF  480
DEQNGQFGRN NSMVGGQFLH DFAG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4xrs_A1e-15283340158Homeobox protein Meis1
4xrs_B1e-15283340158Homeobox protein Meis1
5bng_A1e-15283341159Homeobox protein Meis2
5bng_B1e-15283341159Homeobox protein Meis2
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed during late heart stage embryo in the SAM region between the two developing cotyledons. Expression is initially down-regulated in incipient floral primordia but a strong expression is subsequently detected in the central region of young floral primordia and the inner whorl of developing flowers. In fruit, is expressed in the replum of developing ovaries. {ECO:0000269|PubMed:12874117}.
UniprotTISSUE SPECIFICITY: Predominantly expressed in stems, inflorescences and flowers. {ECO:0000269|PubMed:12874117, ECO:0000269|PubMed:12897247, ECO:0000269|PubMed:13678595, ECO:0000269|PubMed:15019989}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that is involved in the preservation of the spiral phyllotactic arrangement leading to a regular pattern of organ initiation. Required for maintenance of stem cell fate in the shoot apical meristem, and is essential for specifying floral primordia and establishing early internode patterning events during inflorescence development. Acts as transcription repressor of AG expression in floral and inflorescence meristems. Is also responsive of the nuclear import of SHOOT MERISTEMLESS (STM). In the fruit, plays a central role in patterning by negatively regulating SHP expression in order to prevent replum cells from adopting a valve margin cell fate. {ECO:0000269|PubMed:12874117, ECO:0000269|PubMed:12897247, ECO:0000269|PubMed:13678595, ECO:0000269|PubMed:15019989, ECO:0000269|PubMed:15120075, ECO:0000269|PubMed:15155890, ECO:0000269|PubMed:16741748}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc09g011380.2.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004246395.10.0BEL1-like homeodomain protein 9
SwissprotQ9LZM81e-107BLH9_ARATH; BEL1-like homeodomain protein 9
TrEMBLA0A3Q7I0A20.0A0A3Q7I0A2_SOLLC; Uncharacterized protein
STRINGSolyc09g011380.2.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA35202237
Representative plantOGRP13316172
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G02030.13e-96TALE family protein
Publications ? help Back to Top
  1. Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD
    Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments.
    Theor. Appl. Genet., 2005. 112(1): p. 72-84
    [PMID:16208505]
  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. Pabón-Mora N,Wong GK,Ambrose BA
    Evolution of fruit development genes in flowering plants.
    Front Plant Sci, 2014. 5: p. 300
    [PMID:25018763]
  4. Khan M, et al.
    Repression of Lateral Organ Boundary Genes by PENNYWISE and POUND-FOOLISH Is Essential for Meristem Maintenance and Flowering in Arabidopsis.
    Plant Physiol., 2015. 169(3): p. 2166-86
    [PMID:26417006]
  5. Andrés F, et al.
    Floral Induction in Arabidopsis by FLOWERING LOCUS T Requires Direct Repression of BLADE-ON-PETIOLE Genes by the Homeodomain Protein PENNYWISE.
    Plant Physiol., 2015. 169(3): p. 2187-99
    [PMID:26417007]
  6. Bencivenga S,Serrano-Mislata A,Bush M,Fox S,Sablowski R
    Control of Oriented Tissue Growth through Repression of Organ Boundary Genes Promotes Stem Morphogenesis.
    Dev. Cell, 2016. 39(2): p. 198-208
    [PMID:27666746]
  7. Sehra B,Franks RG
    Redundant CArG Box Cis-motif Activity Mediates SHATTERPROOF2 Transcriptional Regulation during Arabidopsis thaliana Gynoecium Development.
    Front Plant Sci, 2017. 8: p. 1712
    [PMID:29085379]
  8. Simonini S,Stephenson P,Østergaard L
    A molecular framework controlling style morphology in Brassicaceae.
    Development, 2018.
    [PMID:29440299]