New GENCODE "KnownGene" V47 for human (hg38) and VM36 for mouse (mm39)

[Gerardo Perez]

Hello Everyone,

We are pleased to announce the release of the GENCODE V47 (hg38) and the GENCODE VM36 (mm39) gene tracks. The GENCODE "KnownGene" V47 and VM36 gene tracks were built using a UCSC pipeline (KnownGene) and the GENCODE comprehensive gene set to generate high-quality manual annotations merged with evidence-based automated annotations. The GENCODE "KnownGene" tracks are our default gene tracks, which have extensive associations to external sources. This allows for additional metadata on every item as well as external links. The track description pages contain options for configuring the display, such as showing non-coding genes, splice variants, and pseudogenes.

Below is a summary of the contents found in each release. For more details visit the GENCODE site.

GENCODE v47 Release Stats
Genes	Observed	Transcripts	Observed
Protein-coding genes	19,433	Protein-coding transcripts	89,832
Long non-coding RNA genes	35,934	- full length protein-coding	64,988
Small non-coding RNA genes	7,565	- partial length protein-coding	24,844
Pseudogenes	14,703	Nonsense mediated decay transcripts	21,873
Immunoglobulin/T-cell receptor gene segments	648	Long non-coding RNA loci transcripts	191,106
Total No of distinct translations	65,809	Genes that have more than one distinct translations	13,646

GENCODE VM36 Release Stats
Genes	Observed	Transcripts	Observed
Protein-coding genes	21,470	Protein-coding transcripts	58,547
Long non-coding RNA genes	36,172	- full length protein-coding	44,949
Small non-coding RNA genes	6,105	- partial length protein-coding	13,598
Pseudogenes	13,769	Nonsense mediated decay transcripts	7,247
Immunoglobulin/T-cell receptor gene segments	701	Long non-coding RNA loci transcripts	156,135
Total No of distinct translations	44,888	Genes that have more than one distinct translations	10,840

We would like to thank the GENCODE project for providing these annotations.