REDIportal provides information on the locations of modified RNA nts in the human genome. We can think of their data as a BED file of locations and some metadata about the type of modifications. This will be an expert database that does not provide any sequences, but we do have one like this, CRS. To import their data we need to:
[x] Intersect the coordinates they provide with all ncRNA locations in the correct genome
[ ] Create rnc_sequence_feature entries for each hit overlap. These overlaps should indicate the feature is an RNA editing event. Provide information on the edit and a link the REDIportal database.
[ ] Do these steps post genome mapping each time it is run.
We also need to provide a search export that makes it possible to find all sequences with these editing events and possibly search them. Maybe adding terms like:
[ ]has_editing_event (True/False) like our other flags
[ ]edit_type:I
I'm not sure the second term is idea, so better suggestions are encourged.
Finally, we need to provide them a linkage between editing even and URS_taxid. I think a file like:
[ ] tab seperated file of editing ID and URS_taxid
REDIportal provides information on the locations of modified RNA nts in the human genome. We can think of their data as a BED file of locations and some metadata about the type of modifications. This will be an expert database that does not provide any sequences, but we do have one like this, CRS. To import their data we need to:
We also need to provide a search export that makes it possible to find all sequences with these editing events and possibly search them. Maybe adding terms like:
has_editing_event(True/False) like our other flagsedit_type:II'm not sure the second term is idea, so better suggestions are encourged.
Finally, we need to provide them a linkage between editing even and URS_taxid. I think a file like: