PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Solyc02g078270.2.1
Common NameLOC101248737
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 LSD
Protein Properties Length: 379aa    MW: 41308.9 Da    PI: 4.334
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc02g078270.2.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD136.48.6e-12289313125
             zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                         CggC+ lLsY  GA++V+C++C+tV
  Solyc02g078270.2.1 289 CGGCQQLLSYSQGAKLVKCSCCQTV 313
                         ************************9 PP
2zf-LSD144.52.6e-14327351125
             zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                         CggC +lL+YP+GApsVRC++C ++
  Solyc02g078270.2.1 327 CGGCAVLLMYPYGAPSVRCSSCRHM 351
                         **********************996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010535.9E-14286316IPR005735Zinc finger, LSD1-type
PfamPF069431.3E-9289313IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010536.3E-10324352IPR005735Zinc finger, LSD1-type
PfamPF069438.3E-12327350IPR005735Zinc finger, LSD1-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009617Biological Processresponse to bacterium
Sequence ? help Back to Top
Protein Sequence    Length: 379 aa     Download sequence    Send to blast
MEEKLSHIEN QQLDDDEEED EGPPPGFDSL AVPSQNTNVV IDEDDDEGPP PGWPSIPQQH  60
NLQTTDVEMG SKEHKSEDDE DGPPPGWNTV ISQKKSPSSP PTLEAVICDI EMEKKEEIIK  120
NEDNGPPPIW QLTPKLPALQ TSTPPSWTQG ASLEDIEMEK KEEAVEDEDN GPPPGWQLTP  180
QLLPLQTSTP PSGIQGAPLA DVEMASNQDC DVEKEGHPLG SPTPPLQSSS PVASSEMDMG  240
RKQEGTKNEE ERPPSEKQPM SHLVQMKPIV PQASSHAATV SSELGQMVCG GCQQLLSYSQ  300
GAKLVKCSCC QTVNLVLEAH EVGQVKCGGC AVLLMYPYGA PSVRCSSCRH MTKIWAHNRR  360
PPQSVQQPRR RHPSYQVH*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.127033e-75fruit
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO94333163e-75
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc02g078270.2.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2265131e-102Solanum lycopersicum chromosome 2 clone C02SLe0005F12, complete sequence
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004232872.10.0uncharacterized protein LOC101248737 isoform X2
TrEMBLA0A3Q7F3X00.0A0A3Q7F3X0_SOLLC; Uncharacterized protein
STRINGSolyc02g078270.2.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA116422223
Representative plantOGRP11461753
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G21610.13e-30lsd one 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]