# Assembly name: GRCm39 # Description: Genome Reference Consortium Mouse Build 39 # Organism name: Mus musculus (house mouse) # Infraspecific name: strain=C57BL/6J # Taxid: 10090 # BioProject: PRJNA20689 # Submitter: Genome Reference Consortium # Date: 2020-06-24 # Synonyms: mm39 # Assembly type: haploid # Release type: major # Assembly level: Chromosome # Genome representation: full # RefSeq category: Reference Genome # GenBank assembly accession: GCA_000001635.9 # RefSeq assembly accession: GCF_000001635.27 # RefSeq assembly and GenBank assemblies identical: yes # ## Assembly-Units: ## GenBank Unit Accession RefSeq Unit Accession Assembly-Unit name ## GCA_000000055.3 GCF_000000055.20 Primary Assembly (C57BL/6J) ## GCA_000004175.1 GCF_000004175.1 non-nuclear # # Ordered by chromosome/plasmid; the chromosomes/plasmids are followed by # unlocalized scaffolds. # Unplaced scaffolds are listed at the end. # RefSeq is equal or derived from GenBank object. # # Sequence-Name Sequence-Role Assigned-Molecule Assigned-Molecule-Location/Type GenBank-Accn Relationship RefSeq-Accn Assembly-Unit Sequence-Length UCSC-style-name 1 assembled-molecule 1 Chromosome CM000994.3 = NC_000067.7 C57BL/6J 195154279 chr1 2 assembled-molecule 2 Chromosome CM000995.3 = NC_000068.8 C57BL/6J 181755017 chr2 3 assembled-molecule 3 Chromosome CM000996.3 = NC_000069.7 C57BL/6J 159745316 chr3 4 assembled-molecule 4 Chromosome CM000997.3 = NC_000070.7 C57BL/6J 156860686 chr4 5 assembled-molecule 5 Chromosome CM000998.3 = NC_000071.7 C57BL/6J 151758149 chr5 6 assembled-molecule 6 Chromosome CM000999.3 = NC_000072.7 C57BL/6J 149588044 chr6 7 assembled-molecule 7 Chromosome CM001000.3 = NC_000073.7 C57BL/6J 144995196 chr7 8 assembled-molecule 8 Chromosome CM001001.3 = NC_000074.7 C57BL/6J 130127694 chr8 9 assembled-molecule 9 Chromosome CM001002.3 = NC_000075.7 C57BL/6J 124359700 chr9 10 assembled-molecule 10 Chromosome CM001003.3 = NC_000076.7 C57BL/6J 130530862 chr10 11 assembled-molecule 11 Chromosome CM001004.3 = NC_000077.7 C57BL/6J 121973369 chr11 12 assembled-molecule 12 Chromosome CM001005.3 = NC_000078.7 C57BL/6J 120092757 chr12 13 assembled-molecule 13 Chromosome CM001006.3 = NC_000079.7 C57BL/6J 120883175 chr13 14 assembled-molecule 14 Chromosome CM001007.3 = NC_000080.7 C57BL/6J 125139656 chr14 15 assembled-molecule 15 Chromosome CM001008.3 = NC_000081.7 C57BL/6J 104073951 chr15 16 assembled-molecule 16 Chromosome CM001009.3 = NC_000082.7 C57BL/6J 98008968 chr16 17 assembled-molecule 17 Chromosome CM001010.3 = NC_000083.7 C57BL/6J 95294699 chr17 18 assembled-molecule 18 Chromosome CM001011.3 = NC_000084.7 C57BL/6J 90720763 chr18 19 assembled-molecule 19 Chromosome CM001012.3 = NC_000085.7 C57BL/6J 61420004 chr19 X assembled-molecule X Chromosome CM001013.3 = NC_000086.8 C57BL/6J 169476592 chrX Y assembled-molecule Y Chromosome CM001014.3 = NC_000087.8 C57BL/6J 91455967 chrY MMCHR1_RANDOM_CTG1 unlocalized-scaffold 1 Chromosome GL456210.1 = NT_166280.1 C57BL/6J 169725 chr1_GL456210v1_random MMCHR1_RANDOM_CTG2 unlocalized-scaffold 1 Chromosome GL456211.1 = NT_166281.1 C57BL/6J 241735 chr1_GL456211v1_random MMCHR1_RANDOM_CTG3 unlocalized-scaffold 1 Chromosome GL456212.1 = NT_166282.1 C57BL/6J 153618 chr1_GL456212v1_random MMCHR1_RANDOM_CTG5 unlocalized-scaffold 1 Chromosome GL456221.1 = NT_162750.1 C57BL/6J 206961 chr1_GL456221v1_random MMCHR1_RANDOM_CTG7 unlocalized-scaffold 1 Chromosome GL456239.1 = NT_166338.1 C57BL/6J 40056 chr1_GL456239v1_random MMCHR1_RANDOM_CTG6 unlocalized-scaffold 1 Chromosome MU069434.1 = NW_023337852.1 C57BL/6J 8412 chr1_MU069434v1_random MMCHR4UN_CTG6 unlocalized-scaffold 4 Chromosome JH584295.1 = NT_187055.1 C57BL/6J 1976 chr4_JH584295v1_random MMCHR5_RANDOM_CTG4 unlocalized-scaffold 5 Chromosome GL456354.1 = NT_166438.1 C57BL/6J 195993 chr5_GL456354v1_random MMCHR5_RANDOM_CTG1 unlocalized-scaffold 5 Chromosome JH584296.1 = NT_187056.1 C57BL/6J 199368 chr5_JH584296v1_random MMCHR5_RANDOM_CTG2 unlocalized-scaffold 5 Chromosome JH584297.1 = NT_187057.1 C57BL/6J 205776 chr5_JH584297v1_random MMCHR5_RANDOM_CTG3 unlocalized-scaffold 5 Chromosome JH584298.1 = NT_187058.1 C57BL/6J 184189 chr5_JH584298v1_random MMCHR5_RANDOM_CTG5 unlocalized-scaffold 5 Chromosome JH584299.1 = NT_187059.1 C57BL/6J 953012 chr5_JH584299v1_random MMCHR7_RANDOM_CTG1 unlocalized-scaffold 7 Chromosome GL456219.1 = NT_166307.1 C57BL/6J 175968 chr7_GL456219v1_random MMCHRX_RANDOM_CTG2 unlocalized-scaffold X Chromosome GL456233.2 = NT_165789.3 C57BL/6J 559103 chrX_GL456233v2_random MMCHRY_CTGU1 unlocalized-scaffold Y Chromosome JH584300.1 = NT_187060.1 C57BL/6J 182347 chrY_JH584300v1_random MMCHRY_CTGU2 unlocalized-scaffold Y Chromosome JH584301.1 = NT_187061.1 C57BL/6J 259875 chrY_JH584301v1_random MMCHRY_CTGU3 unlocalized-scaffold Y Chromosome JH584302.1 = NT_187062.1 C57BL/6J 155838 chrY_JH584302v1_random MMCHRY_CTGU4 unlocalized-scaffold Y Chromosome JH584303.1 = NT_187063.1 C57BL/6J 158099 chrY_JH584303v1_random MSCHRUN_CTG13 unplaced-scaffold na na GL456359.1 = NT_166443.1 C57BL/6J 22974 chrUn_GL456359v1 MSCHRUN_CTG14 unplaced-scaffold na na GL456360.1 = NT_166444.1 C57BL/6J 31704 chrUn_GL456360v1 MSCHRUN_CTG21 unplaced-scaffold na na GL456366.1 = NT_166450.1 C57BL/6J 47073 chrUn_GL456366v1 MSCHRUN_CTG2 unplaced-scaffold na na GL456367.1 = NT_166451.1 C57BL/6J 42057 chrUn_GL456367v1 MSCHRUN_CTG22 unplaced-scaffold na na GL456368.1 = NT_166452.1 C57BL/6J 20208 chrUn_GL456368v1 MSCHRUN_CTG19 unplaced-scaffold na na GL456370.1 = NT_166454.1 C57BL/6J 26764 chrUn_GL456370v1 MSCHRUN_CTG16 unplaced-scaffold na na GL456372.1 = NT_166456.1 C57BL/6J 28664 chrUn_GL456372v1 MSCHRUN_CTG3 unplaced-scaffold na na GL456378.1 = NT_166462.1 C57BL/6J 31602 chrUn_GL456378v1 MSCHRUN_CTG20 unplaced-scaffold na na GL456379.1 = NT_166463.1 C57BL/6J 72385 chrUn_GL456379v1 MSCHRUN_CTG4 unplaced-scaffold na na GL456381.1 = NT_166465.1 C57BL/6J 25871 chrUn_GL456381v1 MSCHRUN_CTG5 unplaced-scaffold na na GL456382.1 = NT_166466.1 C57BL/6J 23158 chrUn_GL456382v1 MSCHRUN_CTG6 unplaced-scaffold na na GL456383.1 = NT_166467.1 C57BL/6J 38659 chrUn_GL456383v1 MSCHRUN_CTG7 unplaced-scaffold na na GL456385.1 = NT_166469.1 C57BL/6J 35240 chrUn_GL456385v1 MSCHRUN_CTG17 unplaced-scaffold na na GL456387.1 = NT_166471.1 C57BL/6J 24685 chrUn_GL456387v1 MSCHRUN_CTG18 unplaced-scaffold na na GL456389.1 = NT_166473.1 C57BL/6J 28772 chrUn_GL456389v1 MSCHRUN_CTG9 unplaced-scaffold na na GL456390.1 = NT_166474.1 C57BL/6J 24668 chrUn_GL456390v1 MSCHRUN_CTG10 unplaced-scaffold na na GL456392.1 = NT_166476.1 C57BL/6J 23629 chrUn_GL456392v1 MSCHRUN_CTG12 unplaced-scaffold na na GL456394.1 = NT_166478.1 C57BL/6J 24323 chrUn_GL456394v1 MSCHRUN_CTG15 unplaced-scaffold na na GL456396.1 = NT_166480.1 C57BL/6J 21240 chrUn_GL456396v1 MSCHRUN_CTG23 unplaced-scaffold na na JH584304.1 = NT_187064.1 C57BL/6J 114452 chrUn_JH584304v1 MSCHRUN_CTG24 unplaced-scaffold na na MU069435.1 = NW_023337853.1 C57BL/6J 31129 chrUn_MU069435v1 MT assembled-molecule MT Mitochondrion AY172335.1 = NC_005089.1 non-nuclear 16299 chrM