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 GSBRNA2T00106280001
Common NameGSBRNA2T00106280001
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family LSD
Protein Properties Length: 93aa    MW: 10026.9 Da    PI: 8.3301
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00106280001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD147.82.3e-15630125
              zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                         CggC+tlL+Y rGA+sV+C++C+tV
  GSBRNA2T00106280001  6 CGGCHTLLMYIRGATSVQCSCCHTV 30
                         ************************9 PP
2zf-LSD138.81.5e-124468125
              zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                         Cg+C+ lL+Y +GA+sV+Ca+C ++
  GSBRNA2T00106280001 44 CGSCKMLLMYQYGARSVKCAVCTFI 68
                         **********************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010533.8E-15332IPR005735Zinc finger, LSD1-type
PfamPF069436.1E-13630IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010531.3E-114170IPR005735Zinc finger, LSD1-type
PfamPF069431.9E-114468IPR005735Zinc finger, LSD1-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0016021Cellular Componentintegral component of membrane
Sequence ? help Back to Top
Protein Sequence    Length: 93 aa     Download sequence    Send to blast
MAQLVCGGCH TLLMYIRGAT SVQCSCCHTV NLALEANQVA HVNCGSCKML LMYQYGARSV  60
KCAVCTFITS VGVILVIFIK RENIDFKSFA NN*
Functional Description ? help Back to Top
Source Description
UniProtNegative regulator of programmed cell death and hypersensitive response (HR). Positive regulator of callus differentiation. {ECO:0000269|PubMed:15915636}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00106280001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By light. Down-regulated by dark. {ECO:0000269|PubMed:15915636}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB1932951e-113AB193295.1 Brassica rapa BrLOL1 mRNA for LSD-One-Like 1, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009151437.16e-47PREDICTED: protein LOL1 isoform X1
RefseqXP_013742644.16e-47protein LOL1 isoform X1
SwissprotQ0J7V94e-44LSD1_ORYSJ; Protein LSD1
TrEMBLA0A3P6FCG54e-61A0A3P6FCG5_BRAOL; Uncharacterized protein
STRINGBra010171.1-P2e-46(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM72932643
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G32540.32e-46lsd one like 1
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]