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Configure Tracks on UCSC Genome Browser: Mouse Dec. 2011 (GRCm38/mm10)
  Tracks:    Groups:
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+   Mapping and Sequencing    
+   Genes and Gene Predictions    
-   Literature    
Lens Patents Lens PatSeq Patent Document Sequences
UniProt Variants UniProt/SwissProt Amino Acid Substitutions
+   mRNA and EST    
-   Expression and Regulation    
ENCODE cCREs ENCODE Candidate Cis-Regulatory Elements (cCREs) combined from all cell types
Tabula Muris Single Cell FACS RNA-Seq of 44,779 cells from Tabula Muris
     Splice Sites     Tabula Muris single cell RNA-Seq splice sites
     Genome Coverage     Tabula Muris single cell RNA-Seq genome coverage
     Cell expression     Single Cell RNA-Seq Gene Expression from Tabula Muris
CpG Islands CpG Islands (Islands < 300 Bases are Light Green)
     Unmasked CpG     CpG Islands on All Sequence (Islands < 300 Bases are Light Green)
     CpG Islands     CpG Islands (Islands < 300 Bases are Light Green)
ENC+EPD Enhc-Gene Enhancer-gene map from ENCODE 3 (UCSD/Ren) with promoters from EPDnew
ENCODE Regulation Integrated Regulation from ENCODE
     Open Chromatin     Open chromatin in embryonic tissue (12 tissues, 8 ages) from ATAC-seq by ENCODE 3 (UCSD/Ren)
     Histone Modifications     Histone modifications in embryonic tissue (8 marks, 12 tissues, 8 ages) from ChIP-seq by ENCODE 3 (UCSD/Ren)
     Chromatin State     Chromatin state of embryonic tissue (12 tissues, 8 ages) from ENCODE 3 (UCSD/Ren)
EPDnew Promoters Promoters from EPDnew
FaceBase 24STypes FaceBase 24 Sample Types Averaged
FANTOM5 FANTOM5: Mapped transcription start sites (TSS) and their usage
     TSS activity (TPM)     TSS activity per sample (TPM)
     TSS activity (read counts)     TSS activity per sample (read counts)
     Max counts     Max counts of CAGE reads
     Total counts     Total counts of CAGE reads
     TSS peaks     FANTOM5: DPI peak, robust set
JASPAR Transcription Factors JASPAR Transcription Factor Binding Site Database
ORegAnno Regulatory elements from ORegAnno
qPCR Primers Mouse (mm10) Whole Transcriptome qPCR Primers
RefSeq Func Elems NCBI RefSeq Functional Elements
ReMap ChIP-seq ReMap Atlas of Regulatory Regions
VISTA Enhancers VISTA Enhancers
-   Comparative Genomics    
Conservation Vertebrate Multiz Alignment & Conservation (60 Species)
ClinVar Lift Human ClinVar variants lifted to Mouse
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
-   Variation and Repeats    
Common SNPs(142) Simple Nucleotide Polymorphisms (dbSNP 142) Found in >= 1% of Samples
RepeatMasker Repeating Elements by RepeatMasker
Alternate strains Alternate mouse strain sequences
     Alternate strains     Alternate mouse strains, mapped to their corresponding reference genome location
     Alignment     Alternate mouse strains, alignments to reference genome
Interrupted Rpts Fragments of Interrupted Repeats Joined by RepeatMasker ID
Microsatellite Microsatellites - Di-nucleotide and Tri-nucleotide Repeats
Mouse SNPs Annotated SNPs from mouse strain comparison analysis
dbSNP Archive dbSNP Track Archive
     Mult. SNPs(137)     Simple Nucleotide Polymorphisms (dbSNP 137) That Map to Multiple Genomic Loci
     Common SNPs(137)     Simple Nucleotide Polymorphisms (dbSNP 137) Found in >= 1% of Samples
     All SNPs(137)     Simple Nucleotide Polymorphisms (dbSNP 137)
     Mult. SNPs(138)     Simple Nucleotide Polymorphisms (dbSNP 138) That Map to Multiple Genomic Loci
     Common SNPs(138)     Simple Nucleotide Polymorphisms (dbSNP 138) Found in >= 1% of Samples
     All SNPs(138)     Simple Nucleotide Polymorphisms (dbSNP 138)
     Mult. SNPs(142)     Simple Nucleotide Polymorphisms (dbSNP 142) That Map to Multiple Genomic Loci
     All SNPs(142)     Simple Nucleotide Polymorphisms (dbSNP 142)
new EVA SNP Short Genetic Variants from European Variant Archive
RepeatMasker Viz. Detailed Visualization of RepeatMasker Annotations
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