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Configure Tracks on UCSC Genome Browser: Rat Jul. 2014 (RGSC 6.0/rn6)
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Control track and group visibility more selectively below.
-   Mapping and Sequencing    
Base Position Chromosome position in bases. (Clicks here zoom in 3x)
Gap Gap Locations
Assembly Assembly from Fragments
Assembly #2 Assembly from Fragments copy #2
Chromosome Band Chromosome Bands Based On ISCN Lengths
Clone Ends Mapping of clone libraries end placements
GC Percent GC Percent in 5-Base Windows
INSDC Accession at INSDC - International Nucleotide Sequence Database Collaboration
RefSeq Acc RefSeq Accession
Restr Enzymes Restriction Enzymes from REBASE
Short Match Perfect Matches to Short Sequence ()
-   Genes and Gene Predictions    
Other RefSeq Non-Rat RefSeq Genes
NCBI RefSeq RefSeq genes from NCBI
AUGUSTUS AUGUSTUS ab initio gene predictions v3.1
Ensembl Genes Ensembl Genes
Geneid Genes Geneid Gene Predictions
Genscan Genes Genscan Gene Predictions
MGC Genes Mammalian Gene Collection Full ORF mRNAs
SGP Genes SGP Gene Predictions Using Rat/Human Homology
TransMap V5 TransMap Alignments Version 5
     TransMap ESTs     TransMap EST Mappings Version 5
     TransMap RNA     TransMap GenBank RNA Mappings Version 5
     TransMap RefGene     TransMap RefSeq Gene Mappings Version 5
     TransMap Ensembl     TransMap Ensembl and GENCODE Mappings Version 5
UniProt UniProt SwissProt/TrEMBL Protein Annotations
-   mRNA and EST    
Rat mRNAs Rat mRNAs from GenBank
Spliced ESTs Rat ESTs That Have Been Spliced
Other mRNAs Non-Rat mRNAs from GenBank
Rat ESTs Rat ESTs Including Unspliced
-   Expression and Regulation    
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)
-   Comparative Genomics    
Conservation Multiz Alignment & Conservation (20 Species)
Chains/Nets Chain and Net Alignments
ClinVar Lift Human ClinVar variants lifted to Rat
Mouse Chain/Net Mouse (Jun. 2020 (GRCm39/mm39)), Chain and Net Alignments
-   Variation and Repeats    
RepeatMasker Repeating Elements by RepeatMasker
EVA SNP Release 3 Short Genetic Variants from European Variant Archive Release 3
Interrupted Rpts Fragments of Interrupted Repeats Joined by RepeatMasker ID
Microsatellite Microsatellites - Di-nucleotide and Tri-nucleotide Repeats
Simple Repeats Simple Tandem Repeats by TRF
UniProt Variants UniProt/SwissProt Amino Acid Substitutions
WM + SDust Genomic Intervals Masked by WindowMasker + SDust