RegSite-Plant Database of Plant Regulatory Elements: Release 2

softberry at softberry.com softberry at softberry.com
Thu Aug 21 06:04:24 EST 2003


RegSite-Plant Database of Plant Regulatory Elements: Release 2 

Softberry developed RegSite-Plant Database describing Plant regulatory 
Elements and programs for searching them and promoter prediction

You can analyze your plant sequence sequence at:

http://www.softberry.com/berry.phtml?topic=promoter

Second RegSite release contains 702 entries and more descriptive fields than 
PLACE, 
including several fields on expression and some others. 

TSSP - Promoter prediction program in plant genomes uses RegSite motifs with 
other features.

NSITE-PL Program  searching for of plant regulatory motifs from Regsite DB.

An example of RegSite entry is given below. For list of RegSite entries, click 
here.
 
Regsite Plant DB: 
  AC    RSP00001
  DT    19-05- 2002 IS
  OS    Spinach
  GS    rps1
  GF    nuclear gene rps1 coding for the spinach plastid ribisomal protein CS1
  SN    S1F_BS
  SD    Negative cis-element conserved in plastid-related genes and binding 
        spinach leaf nuclear factor S1F
  DE
  BF    S1F, spinach leaf nuclear factor
  SA    Negative; element down-regulating the promoter activity of rps1
  SL    5'-end
  SP    -243:-226
  SB    1-box
  SC    1-comp
  DI
  SQ    agaatgttaccatgaaa
  SS
  CS    gwwwccatg
  AL    See: [1]
  MA
  PT    TATA(?)
  PS    
  OR    Mature leaves
  TI
  CE    Dark-grown de-differentiated soybean suspension cells
  ON
  ES    Darkness
  EC    Transient expression in soybean cell protoplasts
  MT    Oligonucleotide-directed mutagenesis; DNAase I protection and Gel shift 
        assays
  RE    [1]
  RS    JBC
  RL    267:23515-23519 (1992)
  RA    Zhou A-X, Li Y-F, Rocipon M, Mache E
  RT    Sequence-specific interaction between S1F, a spinach nuclear factor, 
and 
        a negative cis-element conserved in plastid-related genes
  CT    2 TSS (Pos. 351, 391); Site position in relation to TSS 2 (pos. 391)
  //
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