If we don't have separate tracks, we need pop-up display labels:
WGATAA display label would be "iron repressed GATA element"
ACAAT display label would be mating type M-box
(permanent labels would be too cluttered)
although I think separate tracks is preferable
ValWood
commented
4 weeks ago
replaces https://github.com/pombase/website/issues/903 https://github.com/pombase/website/issues/1419 https://github.com/pombase/website/issues/802
These are provided by a script that uses these binding sites https://www.pombase.org/browse-curation/dna-binding-sites The script needs rerunning to pick up new binding sites.
Suggested additional changes:
Ask pombelist if they know of any additional (and find a more prominent place to host the list) users seem to be quite interested in this data https://user-images.githubusercontent.com/7359272/41833353-e2468ef8-7847-11e8-9a46-c5aba5bd2186.jpg
From @Antonialock extend page using Maria's data (I don't know which data this means?)
Standardize the motif syntax on webpage https://www.pombase.org/browse-curation/dna-binding-sites remove [5'- Is the symbol for OR a "/" (sometimes a | is used)
Omit mating-type M-box ACAAT, there is only one functional version of this, it depends on context. Currently, we flag M-box ACAAT 45439 feature.
CCAAT box currently uses consensus CAAT so it is over-represented. Check this is updated
Prepare one track for each TF binding motif? using https://github.com/pombase/website/blob/master/src/docs/browse-curation/dna-binding-sites.md https://github.com/pombase/legacy-eg-loader https://github.com/pombase/legacy-eg-loader/blob/master/scripts/GenerateBindingMotifTrack.sh
If we don't have separate tracks, we need pop-up display labels: WGATAA display label would be "iron repressed GATA element" ACAAT display label would be mating type M-box (permanent labels would be too cluttered) although I think separate tracks is preferable