Control track and group visibility more selectively below.
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| Base Position |
| Chromosome position in bases. (Clicks here zoom in 3x) |
| Assembly |
| Assembly from Fragments |
| Chromosome Band |
| Chromosome Bands Based On Microscopy |
| Contigs |
| Contig fragments used in the assembly |
| Gap |
| Gap Locations |
| GC Percent |
| GC Percent in 5-Base Windows |
| GRC Incident |
| GRC Incident Database |
| GRC Patch Release |
| GRCm38 alternate sequences and reference sequence patches |
| INSDC |
| Accession at INSDC - International Nucleotide Sequence Database Collaboration |
MGI QTL |
| Mouse Genome Informatics Quantitative Trait Loci ***Lifted from NCBI 37 (mm9)*** |
| Restr Enzymes |
| Restriction Enzymes from REBASE |
| Short Match |
| Perfect Matches to Short Sequence () |
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| UCSC Genes |
| UCSC Genes (RefSeq, GenBank, tRNAs & Comparative Genomics) |
| Ensembl Genes |
| Ensembl Genes |
| Other RefSeq |
| Non-Mouse RefSeq Genes |
| RefSeq Genes |
| RefSeq Genes |
| RetroGenes V6 |
| Retroposed Genes V6, Including Pseudogenes |
| Augustus |
| Augustus gene predictions v3.1 |
| CCDS |
| Consensus CDS |
| GENCODE (Ensembl)... |
| GENCODE Gene Annotations (Ensembl) |
| GENCODE VM4 (Ensembl 78) |
| Gene Annotations from ENCODE/GENCODE Version M4 (Ensembl 78) |
| GENCODE VM3 (Ensembl 76) |
| Gene Annotations from ENCODE/GENCODE Version M3 (Ensembl 76) |
| GENCODE Genes VM2 |
| Gene Annotations from ENCODE/GENCODE Version M2 |
| Genscan Genes |
| Genscan Gene Predictions |
| MGC Genes |
| Mammalian Gene Collection Full ORF mRNAs |
| Old UCSC Genes |
| Previous Version of UCSC Genes |
| ORFeome Clones |
| ORFeome Collaboration Gene Clones |
| SGP Genes |
| SGP Gene Predictions Using Mouse/Human Homology |
| tRNA Genes |
| Transfer RNA Genes Identified with tRNAscan-SE |
| UCSC Alt Events |
| Alternative Splicing, Alternative Promoter and Similar Events in UCSC Genes |
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| Mouse mRNAs |
| Mouse mRNAs from GenBank |
| Spliced ESTs |
| Mouse ESTs That Have Been Spliced |
| Mouse ESTs |
| Mouse ESTs Including Unspliced |
| Other mRNAs |
| Non-Mouse mRNAs from GenBank |
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| CpG Islands... |
| CpG Islands (Islands < 300 Bases are Light Green) |
| CpG Islands |
| CpG Islands (Islands < 300 Bases are Light Green) |
| Unmasked CpG |
| CpG Islands on All Sequence (Islands < 300 Bases are Light Green) |
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FaceBase 24STypes |
| FaceBase 24 Sample Types Averaged |
| qPCR Primers |
| Mouse (mm10) Whole Transcriptome qPCR Primers |
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| Conservation |
| Vertebrate Multiz Alignment & Conservation (60 Species) |
| Euarch Chain/Net |
| Euarchontoglire Genomes, Chain and Net Alignments |
| Glires Chain/Net |
| Glires Genomes, Chain and Net Alignments |
| Placental Chain/Net |
| Placental Genomes, Chain and Net Alignments |
| Vertebrate Chain/Net |
| Vertebrate Genomes, Chain and Net Alignments |
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| Common SNPs(138) |
| Simple Nucleotide Polymorphisms (dbSNP 138) Found in >= 1% of Samples |
| RepeatMasker Viz. |
| Detailed Visualization of RepeatMasker Annotations |
| RepeatMasker |
| Repeating Elements by RepeatMasker |
| All SNPs(137) |
| Simple Nucleotide Polymorphisms (dbSNP 137) |
| All SNPs(138) |
| Simple Nucleotide Polymorphisms (dbSNP 138) |
| Alternate strains... |
| Alternate mouse strain sequences |
| Alignment |
| Alternate mouse strains, alignments to reference genome |
| Alternate strains |
| Alternate mouse strains, mapped to their corresponding reference genome location |
| Common SNPs(137) |
| Simple Nucleotide Polymorphisms (dbSNP 137) Found in >= 1% of Samples |
| Interrupted Rpts |
| Fragments of Interrupted Repeats Joined by RepeatMasker ID |
| Microsatellite |
| Microsatellites - Di-nucleotide and Tri-nucleotide Repeats |
| Mult. SNPs(137) |
| Simple Nucleotide Polymorphisms (dbSNP 137) That Map to Multiple Genomic Loci |
| Mult. SNPs(138) |
| Simple Nucleotide Polymorphisms (dbSNP 138) That Map to Multiple Genomic Loci |
| Segmental Dups |
| Duplications of >1000 Bases of Non-RepeatMasked Sequence |
| Simple Repeats |
| Simple Tandem Repeats by TRF |
| WM + SDust |
| Genomic Intervals Masked by WindowMasker + SDust |
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