Citations for experimentally-shown DNA transcription factor binding motifs in plants have been collated by hand from published literature and computationally matched to all occurrences in MSU’s 1kb upstream DNA sequences for rice. Motifs of six or more bases are recognised, but smaller motifs that occur in 75% or more of loci have been excluded. The presence of the motif doesn’t indicate experimental confirmation in rice unless cited.
|Usage When Searching Rice DB||Usage Viewing Rice DB Results|
Example: show experimental DNA motifs for LOC_Os03g03770.1
Transcript of last update
Took 10 minutes, 13 seconds, 545 millis starting Sun, 24 Jun 2012 08:54:19 GMT: Using /var/folders/75/983jwhw537q11ck7b_b0zwf80000gn/T/RiceDB/ExperimentalMotifs_ Using db.local/downloaded/ExperimentalMotifs_ Using Exp.shown.motifs.to.match.csv Thu Jun 14 12:12:31 WST 2012 Loading motifs with wildcard chars Fanning out wildcards Generating matched motifs (hexamers and above) Skipped GGGCC: Motif too short (try 6 or more nucleotides) Skipped TTGAC: Motif too short (try 6 or more nucleotides) Skipped CAACA: Motif too short (try 6 or more nucleotides) Calculating stats Full text indexed