Table 1 Genome Reference Consortium (GRCm38) and GENCODE annotation updates informed by the strain assemblies

From: Sixteen diverse laboratory mouse reference genomes define strain-specific haplotypes and novel functional loci

Genome Reference Consortium (GRCm38) Update

GRC issue solved

11

Genes completed

10

Genes improved

1

GENCODE Update

Annotated new locus

62

Protein coding

19

lncRNA

37

Pseudogene

6

Updated annotation

272

New coding transcript

105

New transcript

31

New NMD transcript

6

Other

130

  1. Updates indicate known GRC issues solved based on C57BL/6NJ de novo assembly. GENCODE update is based on Comparative Augustus predictions with 75% novel introns and includes annotation and predictions that occur on chromosomes 1–12.
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