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 Solyc10g018780.1.1
Common NameLOC101267454
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 SBP
Protein Properties Length: 294aa    MW: 33428.6 Da    PI: 8.4069
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc10g018780.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP131.33.3e-41165242178
                         --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS
                 SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 
                         +Cq+egC+adl++ak+yhrrhkvCe+hska++v+++g++qrfCqqCsrfh lsefD++krsCr+rLa+hn+rrrk+q+
  Solyc10g018780.1.1 165 RCQAEGCNADLTHAKHYHRRHKVCEFHSKASTVIAAGITQRFCQQCSRFHLLSEFDNGKRSCRKRLADHNRRRRKNQQ 242
                         6**************************************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.104.2E-35161227IPR004333Transcription factor, SBP-box
PROSITE profilePS5114132.248163240IPR004333Transcription factor, SBP-box
SuperFamilySSF1036121.44E-38164244IPR004333Transcription factor, SBP-box
PfamPF031105.5E-31166239IPR004333Transcription factor, SBP-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009554Biological Processmegasporogenesis
GO:0009556Biological Processmicrosporogenesis
GO:0048653Biological Processanther development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 294 aa     Download sequence    Send to blast
MLDYNWGEQS SVMLSNDEQN QENEQNREFF DPYGPNTQTY TENPYPHQHF PNIQHQNHQF  60
FHTQNNPTTL YDPRSYETCY TPHPHPQSSM LQQNSGFMVV PKSEPNQFVG NGSGIDFGSS  120
SSSRIGLNLG GRTYFSSSED HDFVNRLYRR SRAVETAGSI MNTPRCQAEG CNADLTHAKH  180
YHRRHKVCEF HSKASTVIAA GITQRFCQQC SRFHLLSEFD NGKRSCRKRL ADHNRRRRKN  240
QQANLENSNK DTTTNSPSDT LARSPADSGA HCSSVTVAIS PPRISLDVFR QRP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A3e-301662391184squamosa promoter binding protein-like 4
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed during plant development. During pollen development, required for crosporogenesis that leads to archesporial formation and for the histogenesis of the microsporangia. During ovules development, involved in the transition to meiosis of the megaspore mother cells. {ECO:0000269|PubMed:10524240, ECO:0000269|PubMed:12671094}.
UniprotTISSUE SPECIFICITY: Expressed in shoot apical region and early floral tissues. Transcripts levels increase in developing pollen sacs, and decrease in later stage of anther development. Strongly expressed in the placental region of the carpels. {ECO:0000269|PubMed:12671094, ECO:0000269|PubMed:17093870}.
Functional Description ? help Back to Top
Source Description
UniProtTrans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'. Binds specifically to the 5'-GTAC-3' core sequence. Involved in development and floral organogenesis. Required for ovule differentiation, pollen production, filament elongation, seed formation and siliques elongation. Also seems to play a role in the formation of trichomes on sepals. May positively modulate gibberellin (GA) signaling in flower. {ECO:0000269|PubMed:12671094, ECO:0000269|PubMed:16095614, ECO:0000269|PubMed:17093870}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00090SELEXTransfer from AT1G02065Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc10g018780.1.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2447620.0Solanum lycopersicum strain Heinz 1706 chromosome 10 clone hba-44o4 map 10, complete sequence
GenBankAC2447820.0Solanum lycopersicum strain Heinz 1706 chromosome 10 clone hba-55j16 map 10, complete sequence
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004248549.10.0squamosa promoter-binding-like protein 8 isoform X1
SwissprotQ8GXL34e-83SPL8_ARATH; Squamosa promoter-binding-like protein 8
TrEMBLA0A3Q7IE610.0A0A3Q7IE61_SOLLC; Uncharacterized protein
STRINGSolyc10g018780.1.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA48462341
Representative plantOGRP9717230
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G02065.12e-65squamosa promoter binding protein-like 8
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. Jorgensen SA,Preston JC
    Differential SPL gene expression patterns reveal candidate genes underlying flowering time and architectural differences in Mimulus and Arabidopsis.
    Mol. Phylogenet. Evol., 2014. 73: p. 129-39
    [PMID:24508602]
  3. Xing S, et al.
    SPL8 Acts Together with the Brassinosteroid-Signaling Component BIM1 in Controlling Arabidopsis thaliana Male Fertility.
    Plants (Basel), 2013. 2(3): p. 416-28
    [PMID:27137384]