Resource
| Id | reference/Mouse/genome/GRCm38 |
|---|---|
| Type | genome |
| Version | 0 |
| Summary |
Mouse (Mus musculus) GRCm38 primary assembly reference genome
|
| Description |
GENCODE GRCm38 primary genome assembly for the house mouse (Mus musculus), in FASTA format. Downloaded from: https://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_mouse/release_M22/GRCm38.primary_assembly.genome.fa.gz Download date: 9/10/2026 Downloaded gzip was recompressed with bgzip and indexed with samtools faidx. |
| Labels |
Chromosomes (66):
| Chrom | Length | A | T | C | G | N |
|---|---|---|---|---|---|---|
| Global | 2,730,871,774 | 28.32% | 28.35% | 20.24% | 20.24% | 2.86% |
| chr1 | 195,471,971 | 28.92% | 28.86% | 20.21% | 20.19% | 1.82% |
| chr2 | 182,113,224 | 28.33% | 28.38% | 20.59% | 20.61% | 2.08% |
| chr3 | 160,039,680 | 29.06% | 29.14% | 19.75% | 19.78% | 2.27% |
| chr4 | 156,508,116 | 28.00% | 28.06% | 20.54% | 20.55% | 2.84% |
| chr5 | 151,834,684 | 27.98% | 28.00% | 20.72% | 20.72% | 2.58% |
| chr6 | 149,736,546 | 28.61% | 28.64% | 20.25% | 20.23% | 2.27% |
| chr7 | 145,441,459 | 27.69% | 27.85% | 21.01% | 20.98% | 2.47% |
| chr8 | 129,401,213 | 27.99% | 27.95% | 20.57% | 20.56% | 2.93% |
| chr9 | 124,595,110 | 27.87% | 27.85% | 20.77% | 20.75% | 2.76% |
| chr10 | 130,694,993 | 28.45% | 28.52% | 20.11% | 20.15% | 2.78% |
| chr11 | 122,082,543 | 27.36% | 27.29% | 21.32% | 21.30% | 2.73% |
| chr12 | 120,129,022 | 28.22% | 28.49% | 20.29% | 20.33% | 2.67% |
| chr13 | 120,421,639 | 28.45% | 28.33% | 20.24% | 20.24% | 2.74% |
| chr14 | 124,902,244 | 28.58% | 28.63% | 20.00% | 20.02% | 2.77% |
| chr15 | 104,043,685 | 28.04% | 28.11% | 20.30% | 20.29% | 3.26% |
| chr16 | 98,207,768 | 28.55% | 28.60% | 19.79% | 19.82% | 3.25% |
| chr17 | 94,987,271 | 27.64% | 27.69% | 20.62% | 20.60% | 3.45% |
| chr18 | 90,702,639 | 28.24% | 28.22% | 19.95% | 20.00% | 3.58% |
| chr19 | 61,431,566 | 27.24% | 27.03% | 20.27% | 20.22% | 5.25% |
| chrX | 171,031,299 | 29.04% | 29.03% | 18.76% | 18.76% | 4.41% |
| chrY | 91,744,698 | 29.26% | 29.44% | 18.72% | 18.63% | 3.95% |
| chrM | 16,299 | 34.54% | 28.72% | 24.39% | 12.35% | 0.00% |
| GL456210.1 | 169,725 | 27.47% | 28.52% | 22.11% | 21.90% | 0.00% |
| GL456211.1 | 241,735 | 28.27% | 27.81% | 22.25% | 21.67% | 0.00% |
| GL456212.1 | 153,618 | 27.67% | 28.60% | 22.04% | 21.69% | 0.00% |
| GL456213.1 | 39,340 | 28.78% | 27.20% | 22.32% | 21.70% | 0.00% |
| GL456216.1 | 66,673 | 28.51% | 35.00% | 14.85% | 17.18% | 4.46% |
| GL456219.1 | 175,968 | 28.64% | 31.23% | 19.82% | 20.30% | 0.00% |
| GL456221.1 | 206,961 | 28.49% | 27.96% | 21.38% | 22.18% | 0.00% |
| GL456233.1 | 336,933 | 27.85% | 30.40% | 17.76% | 17.18% | 6.81% |
| GL456239.1 | 40,056 | 30.18% | 27.31% | 21.00% | 21.51% | 0.00% |
| GL456350.1 | 227,966 | 25.80% | 27.37% | 23.30% | 23.52% | 0.00% |
| GL456354.1 | 195,993 | 31.84% | 27.04% | 20.58% | 20.54% | 0.00% |
| GL456359.1 | 22,974 | 30.15% | 30.87% | 18.62% | 19.93% | 0.44% |
| GL456360.1 | 31,704 | 30.22% | 28.79% | 20.19% | 19.66% | 1.14% |
| GL456366.1 | 47,073 | 28.01% | 24.48% | 17.87% | 18.22% | 11.42% |
| GL456367.1 | 42,057 | 29.33% | 31.12% | 17.12% | 19.02% | 3.40% |
| GL456368.1 | 20,208 | 33.20% | 28.22% | 18.58% | 18.42% | 1.58% |
| GL456370.1 | 26,764 | 26.80% | 28.40% | 12.28% | 9.99% | 22.52% |
| GL456372.1 | 28,664 | 21.92% | 22.98% | 19.07% | 17.72% | 18.31% |
| GL456378.1 | 31,602 | 27.08% | 30.12% | 19.32% | 19.75% | 3.73% |
| GL456379.1 | 72,385 | 29.60% | 30.26% | 18.21% | 18.75% | 3.18% |
| GL456381.1 | 25,871 | 25.82% | 16.27% | 16.89% | 21.25% | 19.78% |
| GL456382.1 | 23,158 | 31.04% | 28.92% | 18.18% | 18.50% | 3.36% |
| GL456383.1 | 38,659 | 15.40% | 35.75% | 17.99% | 11.58% | 19.29% |
| GL456385.1 | 35,240 | 29.01% | 31.68% | 19.45% | 19.58% | 0.28% |
| GL456387.1 | 24,685 | 28.45% | 16.02% | 19.41% | 23.75% | 12.37% |
| GL456389.1 | 28,772 | 16.16% | 34.87% | 18.53% | 18.57% | 11.86% |
| GL456390.1 | 24,668 | 24.01% | 9.43% | 7.82% | 12.04% | 46.70% |
| GL456392.1 | 23,629 | 37.67% | 23.92% | 15.60% | 20.86% | 1.96% |
| GL456393.1 | 55,711 | 24.99% | 24.15% | 21.04% | 21.25% | 8.56% |
| GL456394.1 | 24,323 | 28.82% | 24.03% | 17.09% | 19.12% | 10.93% |
| GL456396.1 | 21,240 | 34.81% | 21.62% | 18.15% | 21.95% | 3.46% |
| JH584292.1 | 14,945 | 28.82% | 33.45% | 17.78% | 19.95% | 0.00% |
| JH584293.1 | 207,968 | 25.60% | 26.91% | 23.82% | 23.67% | 0.00% |
| JH584294.1 | 191,905 | 25.62% | 27.18% | 23.25% | 23.95% | 0.00% |
| JH584295.1 | 1,976 | 19.18% | 18.98% | 30.92% | 30.92% | 0.00% |
| JH584296.1 | 199,368 | 31.36% | 27.65% | 20.58% | 20.42% | 0.00% |
| JH584297.1 | 205,776 | 30.70% | 28.37% | 20.44% | 20.49% | 0.00% |
| JH584298.1 | 184,189 | 27.98% | 30.97% | 20.39% | 20.66% | 0.00% |
| JH584299.1 | 953,012 | 28.29% | 30.67% | 20.64% | 20.41% | 0.00% |
| JH584300.1 | 182,347 | 30.42% | 30.21% | 19.46% | 19.91% | 0.00% |
| JH584301.1 | 259,875 | 31.29% | 29.52% | 19.10% | 20.09% | 0.00% |
| JH584302.1 | 155,838 | 32.16% | 28.84% | 19.27% | 19.73% | 0.00% |
| JH584303.1 | 158,099 | 30.99% | 29.19% | 20.07% | 19.76% | 0.00% |
| JH584304.1 | 114,452 | 22.81% | 35.02% | 22.72% | 19.45% | 0.00% |
Bi-Nucleotide distribution:
| A | T | C | G | N | |
|---|---|---|---|---|---|
| A | 8.85% | 7.17% | 5.17% | 7.13% | 0.00% |
| T | 6.19% | 8.87% | 6.05% | 7.24% | 0.00% |
| C | 7.23% | 7.13% | 5.07% | 0.80% | 0.00% |
| G | 6.04% | 5.18% | 3.95% | 5.07% | 0.00% |
| N | 0.00% | 0.00% | 0.00% | 0.00% | 2.86% |
Files
| Filename | Size | md5 |
|---|---|---|
| GRCm38.primary_assembly.genome.fa.gz | 695.77 MB | c5e9976415368fee7d023509e8f0b280 |
| GRCm38.primary_assembly.genome.fa.gz.fai | 2.15 KB | 77feb221570f3bb85c39e8326ca75e50 |
| GRCm38.primary_assembly.genome.fa.gz.gzi | 664.63 KB | 5fa045f40b17034bf1101c7a94295247 |
| genomic_resource.yaml | 504.0 B | 34f8c4991ff87642e24a38ad62437595 |
| statistics/ |