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 Solyc01g059960.1.1
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: 473aa    MW: 53789.8 Da    PI: 8.9933
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc01g059960.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS276.39.7e-851004692374
                GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykal.ppsetseknsseelaalkl....fsev 87 
                         v lLl  Ae++++++l +a++lL+   + + ++g+p+qR++ yf+e L++r+++ ++++  +  +  + +++ ++++l+  ++      ++
  Solyc01g059960.1.1 100 VLLLLVSAEMLANRQLDCARKLLNLCINFSLSAGNPVQRVVYYFAESLQKRINK-GTGIPTIAaKIDAVNPNIMEDVLMDPRTdvieTEQM 189
                         5689999**********************************************9.4444443324444444456666666666667789** PP

                GRAS  88 sPilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegpp.slRiTgvgspesgskeeleetgerLakfAeelgvpfe 177
                          P+ k++++t  q Il++v++ +r+H iDf+i+ G QW  L+qaL    e pp +l+iT+vg     s  +++e+g+rL++fA++l++pf+
  Solyc01g059960.1.1 190 LPFRKVTQFTGIQSILDSVKSFKRIHLIDFGIKTGSQWTILMQALVGNGECPPeHLKITAVGT----SLIRMQEVGKRLTSFADTLHIPFS 276
                         **********************************************87765555*********....9*********************** PP

                GRAS 178 fnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalf 268
                         f++ v+++l  ++ + ++ k gE++a+ +  +l +ll+ + +l+s    ++++ ksl P v+vv+e ea++n++ F +rf eal yysa+f
  Solyc01g059960.1.1 277 FKT-VVSDLRHINKDLFESKVGEVVAIYSDSRLWTLLAWPNHLQS----LIQVCKSLDPCVMVVTEIEANTNTPIFIDRFNEALFYYSAIF 362
                         ***.7999*****************************77766666....****************************************** PP

                GRAS 269 dsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdg.yrveeesgsl 358
                         dsle+ ++ +++ r++   ++++r i+nv++ eg+e ++rhe+l++Wr  ++++G ++++ls++   qakll ++   +g  ++e + +sl
  Solyc01g059960.1.1 363 DSLETCIGWNHQYRAVAQGVYIRRIIENVITSEGEEMVHRHEKLRSWRTLFKNFGIEEAELSHSSLYQAKLLAENSTCHGlCSLEMDGKSL 453
                         *****************************************************************************777699******** PP

                GRAS 359 vlgWkdrpLvsvSaWr 374
                         ++ Wk+ p+ s+SaW+
  Solyc01g059960.1.1 454 IIKWKGTPIKSLSAWK 469
                         ***************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098542.02273448IPR005202Transcription factor GRAS
PfamPF035143.3E-82100469IPR005202Transcription factor GRAS
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: 473 aa     Download sequence    Send to blast
MKALFLDYTL SYMNLTSLYF KMATAKRTTV SIFIICFKKR KPPRYRRPKM VLSTTTIMKI  60
AKEQLKLYTS QNHDAYSIIF SPLIADLGLS PQVTEEVELV LLLLVSAEML ANRQLDCARK  120
LLNLCINFSL SAGNPVQRVV YYFAESLQKR INKGTGIPTI AAKIDAVNPN IMEDVLMDPR  180
TDVIETEQML PFRKVTQFTG IQSILDSVKS FKRIHLIDFG IKTGSQWTIL MQALVGNGEC  240
PPEHLKITAV GTSLIRMQEV GKRLTSFADT LHIPFSFKTV VSDLRHINKD LFESKVGEVV  300
AIYSDSRLWT LLAWPNHLQS LIQVCKSLDP CVMVVTEIEA NTNTPIFIDR FNEALFYYSA  360
IFDSLETCIG WNHQYRAVAQ GVYIRRIIEN VITSEGEEMV HRHEKLRSWR TLFKNFGIEE  420
AELSHSSLYQ AKLLAENSTC HGLCSLEMDG KSLIIKWKGT PIKSLSAWKF HQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5hyz_A8e-4413246936375GRAS family transcription factor containing protein, expressed
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc01g059960.1.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2389080.0Solanum lycopersicum strain Heinz 1706 chromosome 1 clone hba-126f9 map 1, complete sequence
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004229078.10.0DELLA protein RGL2-like
TrEMBLK4AWA30.0K4AWA3_SOLLC; Uncharacterized protein
STRINGSolyc01g059960.1.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA85001728
Representative plantOGRP2520734
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G03450.13e-56RGA-like 2
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]