603cf4220990cac99c15aec4c7503e8a81e14bb2 gperez2 Wed Feb 4 15:11:15 2026 -0800 Updating shortLabels/longLabels and updating the text for the donors and acceptors on the minus strand for the recount3 track, refs #34886 diff --git src/hg/makeDb/trackDb/recount3.html src/hg/makeDb/trackDb/recount3.html index 85c3d486988..028a24b1cb4 100644 --- src/hg/makeDb/trackDb/recount3.html +++ src/hg/makeDb/trackDb/recount3.html @@ -21,32 +21,32 @@

Display Conventions

Intron items are colored based on splice junction motifs and read support. Darker colors indicate higher read coverage. Split read counts and splice motifs are shown on mouseover. By default, only introns with a minimum read count of 10,000 are shown. This threshold can be changed on the track configuration page.

The intron items are color-coded (darker colors indicate higher coverage):

Sky blue: GT donors and AG acceptors (CT and AC on the minus strand)
Turquoise: GC donors (GT on the minus strand)
Orange: AT donors and AC acceptors (GT and GT on the +
Turquoise: GC donors (GC on the minus strand)
Orange: AT donors and AC acceptors (GT and AT on the minus strand)
Grey: Non-canonical junction motifs. These could be sequencing errors, polymorphisms, or very rare U12 introns.

Introns can be filtered by:

Intron size - Length of the intron. The default range is 30 to 100,000 bases.
Split read count - Number of split reads supporting the intron. The default is a minimum of 10,000 reads.
Splice junction motif - The motif is specified in the form GT/AG, with canonical motifs in uppercase and unknown motifs in lowercase. The default is no filtering.