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 Solyc11g012510.1.1
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 GRAS
Protein Properties Length: 543aa    MW: 60549.5 Da    PI: 5.6072
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc11g012510.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS417.89.2e-1281735422374
                GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilk 92 
                         +elL +cAeavs+ d + a+al++ l++++s +g+pm+Rl ay++e+++arl++s+s +yk+l+++e +     e l+++++ ++++P++k
  Solyc11g012510.1.1 173 KELLDACAEAVSDADISTAEALMSALEQRVSVSGEPMERLGAYVLEGIRARLLSSGSIIYKKLKCKEPT---GLELLSYMQVIFNMCPYYK 260
                         78999***************************************************************9...9****************** PP

                GRAS  93 fshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAeelgvpfefnvl 181
                         f+++ aN  I ea+ +e+r+HiiDf+i qG QW+ Ll+ La Rp+gpp +RiTgv++ es   +   l+ +g+rLa++A+++gvpfef+  
  Solyc11g012510.1.1 261 FAYMSANVVINEAMMNENRIHIIDFQIAQGSQWMFLLHYLAHRPGGPPFVRITGVDDDESAyaRGGGLQLVGKRLAEVAKSCGVPFEFHG- 350
                         *********************************************************998899999************************. PP

                GRAS 182 vakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsle 272
                         +a +  +++le+Lrvk+gEalaVn+ ++lh+++desvs+ ++rd++L+lvkslsPk+v++veqe+++n+++Fl rf e+l+yy+a+f+s++
  Solyc11g012510.1.1 351 AALSGCEVQLENLRVKHGEALAVNFPYMLHHMPDESVSTINHRDRLLRLVKSLSPKIVTLVEQESNTNTAPFLPRFRETLDYYTAMFESID 441
                         8999*************************************************************************************** PP

                GRAS 273 aklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWk 363
                         a  pr+++eri+ E+++++r++vn++acega+r+erhe ++kWr rl++aGF++ +ls ++ +++k++l++++ + yr  e +g+l+lgWk
  Solyc11g012510.1.1 442 AARPRDDKERISAEEHCVARDVVNIIACEGADRVERHELFGKWRLRLMMAGFTQCQLSPSVGETIKHMLKEYSPN-YRYAEGEGALYLGWK 531
                         *************************************************************************55.*************** PP

                GRAS 364 drpLvsvSaWr 374
                         +r+L + SaWr
  Solyc11g012510.1.1 532 NRALATSSAWR 542
                         **********8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098565.189146523IPR005202Transcription factor GRAS
PfamPF035143.2E-125173542IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010200Biological Processresponse to chitin
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: 543 aa     Download sequence    Send to blast
MQTSQRTQMS GSVHGLYNQQ MQQVEQYYAP YDVLKNSCKD NRSSGMQFSL QAQDEQFFTL  60
DSSPATDYVV NDSPPALSVS SNRSPFSPQC SQSYMSDLHH SSDNTCGSPL SGCSGIDDGD  120
LRHVLRELEN KLLGPESDTD DSCSCSLNDM VSKPSSVTRW NRVLDMAPGL NLKELLDACA  180
EAVSDADIST AEALMSALEQ RVSVSGEPME RLGAYVLEGI RARLLSSGSI IYKKLKCKEP  240
TGLELLSYMQ VIFNMCPYYK FAYMSANVVI NEAMMNENRI HIIDFQIAQG SQWMFLLHYL  300
AHRPGGPPFV RITGVDDDES AYARGGGLQL VGKRLAEVAK SCGVPFEFHG AALSGCEVQL  360
ENLRVKHGEA LAVNFPYMLH HMPDESVSTI NHRDRLLRLV KSLSPKIVTL VEQESNTNTA  420
PFLPRFRETL DYYTAMFESI DAARPRDDKE RISAEEHCVA RDVVNIIACE GADRVERHEL  480
FGKWRLRLMM AGFTQCQLSP SVGETIKHML KEYSPNYRYA EGEGALYLGW KNRALATSSA  540
WR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A2e-6117954126378Protein SCARECROW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.183060.0callus| flower| fruit
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During development, higher expression levels are detected in young rosette leaves, senescing leaves and petals and sepals at flower stage 15. {ECO:0000269|PubMed:16680434}.
UniprotTISSUE SPECIFICITY: Expressed in roots, hypocotyls, cotyledons, shoot apex, leaves, flowers and siliques. {ECO:0000269|PubMed:10341448, ECO:0000269|PubMed:16680434, ECO:0000269|PubMed:18500650}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that acts as a positive regulator of continuous red light signals downstream of phytochrome B (phyB). Required for the regulation of hypocotyl elongation during de-etiolation. May be required to modulate phytochrome A (phyA) signal transduction in a phyB-independent way. {ECO:0000269|PubMed:16680434}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc11g012510.1.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By osmotic and cold stresses, and UV-A/B. {ECO:0000269|PubMed:16680434}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ3998240.0Lycopersicon esculentum GRAS1 (GRAS1) mRNA, complete cds
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001234305.20.0GRAS1 protein
SwissprotQ9M0M50.0SCL13_ARATH; Scarecrow-like protein 13
TrEMBLA0A3Q7IRV00.0A0A3Q7IRV0_SOLLC; Uncharacterized protein
STRINGSolyc11g012510.1.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA68124111
Representative plantOGRP14091447
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G17230.10.0SCARECROW-like 13
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. Mayrose M,Ekengren SK,Melech-Bonfil S,Martin GB,Sessa G
    A novel link between tomato GRAS genes, plant disease resistance and mechanical stress response.
    Mol. Plant Pathol., 2006. 7(6): p. 593-604
    [PMID:20507472]