Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   

Mouse Genome Information - Mouse Genome Assembly GRCm38


The laboratory mouse is a major model organism for basic mammalian biology, human disease, and genome evolution, and is extensively used for comparative genome analysis.

Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus; Mus musculus.


Summary

AssemblyMouse Genome Assembly GRCm38
GCF_000001635.26
Total Sequence Length (bp)2730855475
Total Ungapped Length (bp)2652767259
Gaps Between Scaffolds (bp)191
Number of Scaffolds162
Scaffold N50 (bp)54517951
Scaffold L5017
Number of Contigs605
Contig N50 (bp)32813180
Contig L5025
No. of NCBI chromosome records21

Gene Counts

Total Genes54640
Protein Coding genes22900
Non coding RNA16550
tRNA427
SnRNA997
rRNA65
Pseudogenes10613
Gene transcripts149301
Genes without orthologs34703
Genes with Orthologs19937

#Mouse Genes with Orthologs in...

Human19709
Rat18590
Chinchilla15953
Bonobo17151
Dog17822
Squirrel16292
Pig16996
Naked Mole-rat
Green Monkey

Other

Exons522686
QTLS2944
SSLPs44341
Karyotype
 
Chromosomes
,
ChromosomeSequence LengthGap LengthGap CountContig CountRefSeq Id
1 195471971 3562772 45 8 NC_000067.6
2 182113224 3786573 28 7 NC_000068.7
3 160039680 3640814 12 4 NC_000069.6
4 156508116 4452505 43 3 NC_000070.6
5 151834684 3915010 34 12 NC_000071.6
6 149736546 3400000 10 4 NC_000072.6
7 145441459 3586051 33 5 NC_000073.6
8 129401213 3789781 14 5 NC_000074.6
9 124595110 3438092 36 7 NC_000075.6
10 130694993 3627329 31 3 NC_000076.6
11 122082543 3336598 7 2 NC_000077.6
12 120129022 3206600 6 2 NC_000078.6
13 120421639 3300446 11 5 NC_000079.6
14 124902244 3460131 13 2 NC_000080.6
15 104043685 3390370 12 3 NC_000081.6
16 98207768 3188000 6 2 NC_000082.6
17 94987271 3279807 39 3 NC_000083.6
18 90702639 3250000 7 3 NC_000084.6
19 61431566 3225710 7 2 NC_000085.6
X 171031299 7543293 97 20 NC_000086.7
Y 91744698 3620000 32 16 NC_000087.7
MT 16299 - - 1 NC_005089.1
References
Mouse Genome Sequencing Consortium. Initial sequencing and comparative analysis of the mouse genome. Nature. 2002 Dec 5;420(6915):520-62. PMID: 12466850