d10aba5d8ac8abc3655c599b9e421538a8a7e32e
lrnassar
  Wed Jul 22 10:56:04 2026 -0700
Releasing GENCODE V50 knownGene tracks for hg38, hg19 (V50lift37), and mm39 (VM39).

Promote knownGene from the alpha-gated staging file to the released trackDb: bump
shortLabel/longLabel, bigDataUrl, html, and searchTrix to the new version; collapse the
include to a single untagged knownGene.ra; and remove the knownGene.alpha.ra files.
refs #37395 #37393 #37391

diff --git src/hg/makeDb/trackDb/mouse/mm39/knownGene.ra src/hg/makeDb/trackDb/mouse/mm39/knownGene.ra
index c8c1123c8ec..108c7020b7d 100644
--- src/hg/makeDb/trackDb/mouse/mm39/knownGene.ra
+++ src/hg/makeDb/trackDb/mouse/mm39/knownGene.ra
@@ -1,41 +1,41 @@
 track knownGene
-shortLabel GENCODE VM38
-longLabel GENCODE VM38
+shortLabel GENCODE VM39
+longLabel GENCODE VM39
 #parent knownGeneArchive
 priority 1
 #priority 5
 visibility pack
 type bigGenePred
-bigDataUrl /gbdb/mm39/gencode/gencodeVM38.bb
+bigDataUrl /gbdb/mm39/gencode/gencodeVM39.bb
 baseColorDefault genomicCodons
 group genes
 isGencode3 on
 directUrl /cgi-bin/hgGene?hgg_gene=%s&hgg_chrom=%s&hgg_start=%d&hgg_end=%d&hgg_type=%s&db=%s
 labelFields geneName,name,geneName2,name2
 defaultLabelFields geneName
 itemRgb on
-#externalDb knownGeneVM38
+#externalDb knownGeneVM39
 maxItems 50000
-html knownGeneVM38
+html knownGeneVM39
 searchIndex name
 idXref kgAlias kgID alias
 intronGap 12
 defaultLinkedTables kgXref
 
 searchName knownGeneAcc
 searchTable knownGene
 searchMethod exact
 searchType knownGene
 shortCircuit 1
 semiShortCircuit 1
 termRegex ENST[0-9.]+
 searchPriority 9
 
 searchName knownGeneFast
 searchTable knownGene
 searchType knownGeneFast
 shortCircuit 1
 searchPriority 1001
-searchTrix /gbdb/mm39/knownGeneFastVM38.ix
+searchTrix /gbdb/mm39/knownGeneFastVM39.ix
 doPage 1