Updated Gene Tracks Available for the Human (hg38) and Mouse (mm10) Assemblies

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Christopher Lee

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Jun 30, 2016, 5:02:47 PM6/30/16

to genome-...@soe.ucsc.edu, Jonathan Casper, Brian Raney, Luvina Guruvadoo

We are pleased to announce the release of an updated GENCODE Genes track for the Human (GRCh38/hg38) assembly. The GENCODE v24 gene set has 197,782 total transcripts, compared with 195,178 in the previous version. The total number of canonical genes has increased from 49,534 to 49,948. Comparing the new gene set with the previous version:

193,647 transcripts did not change.
128 transcripts were not carried forward to the new version.
997 transcripts are "compatible" with those in the previous set, meaning that the two transcripts show consistent splicing. In most cases, the old and new transcripts differ in the lengths of their UTRs.
406 transcripts overlap with those in the previous set, but do not show consistent splicing (i.e., they contain overlapping introns with differing splice sites).

More details about the GENCODE Genes track can be found on the GENCODE v24 track description page.

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We are pleased to announce the release of an updated UCSC Genes track for the Mouse (GRCm38/mm10) assembly. The new release has 63,759 total transcripts, compared with 63,244 in the previous version. The total number of canonical genes has increased from 32,958 to 33,079. Comparing the new gene set with the previous version:

60,827 transcripts did not change between versions.
148 transcripts were not carried forward to the new version.
1,929 transcripts are "compatible" with those in the previous set, meaning that the two transcripts show consistent splicing. In most cases, the old and new transcripts differ in the lengths of their UTRs.
340 transcripts overlap with those in the previous set, but do not show consistent splicing (i.e., they contain overlapping introns with differing splice sites).

More details about the new UCSC Genes track can be found on the UCSC Genes track description page.

Many thanks to Brian Raney, Jonathan Casper, Luvina Guruvadoo and Christopher Lee for their work on these tracks!