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Configure Tracks on UCSC Genome Browser: Chicken Nov. 2011 (ICGSC Gallus_gallus-4.0/galGal4)
  Tracks:    Groups:
Control track and group visibility more selectively below.
-   PhyloCSF    
PhyloCSF Novel v4.82 PhyloCSF Candidate Coding Regions (PCCRs) Not In Ensembl v4.82 Gene Set
Smoothed PhyloCSF Smoothed PhyloCSF
     PhyloCSF-2     Smoothed PhyloCSF Strand - Frame 2
     PhyloCSF-1     Smoothed PhyloCSF Strand - Frame 1
     PhyloCSF-0     Smoothed PhyloCSF Strand - Frame 0
     PhyloCSF+2     Smoothed PhyloCSF Strand + Frame 2
     PhyloCSF+1     Smoothed PhyloCSF Strand + Frame 1
     PhyloCSF+0     Smoothed PhyloCSF Strand + Frame 0
PhyloCSF Regions PhyloCSF approximate coding regions
     PhyloCSF-2Regns     PhyloCSF approximate coding regions, Strand -, Frame 2
     PhyloCSF-1Regns     PhyloCSF approximate coding regions, Strand -, Frame 1
     PhyloCSF-0Regns     PhyloCSF approximate coding regions, Strand -, Frame 0
     PhyloCSF+2Regns     PhyloCSF approximate coding regions, Strand +, Frame 2
     PhyloCSF+1Regns     PhyloCSF approximate coding regions, Strand +, Frame 1
     PhyloCSF+0Regns     PhyloCSF approximate coding regions, Strand +, Frame 0
Raw PhyloCSF Raw PhyloCSF
     PhyloCSFraw-2     Raw PhyloCSF Strand - Frame 2
     PhyloCSFraw-1     Raw PhyloCSF Strand - Frame 1
     PhyloCSFraw-0     Raw PhyloCSF Strand - Frame 0
     PhyloCSFraw+2     Raw PhyloCSF Strand + Frame 2
     PhyloCSFraw+1     Raw PhyloCSF Strand + Frame 1
     PhyloCSFraw+0     Raw PhyloCSF Strand + Frame 0
PhyloCSF Power Relative branch length of local alignment, a measure of PhyloCSF statistical power
Splice Predictions Splice Predictions
     SplicePred-     Splice Predictions For - Strand
     SplicePred+     Splice Predictions For + Strand
-   CESAR Gene Mappings    
CESAR Gene Annotations Human exons mapped by CESAR
-   Mapping and Sequencing    
Base Position Chromosome position in bases. (Clicks here zoom in 3x)
Assembly Assembly from Fragments
Chicken QTL Chicken Quantitative Trait Loci from animalQTLdb
Gap Gap Locations
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    
RefSeq Genes RefSeq Genes
AUGUSTUS AUGUSTUS ab initio gene predictions v3.1
Ensembl Genes Ensembl Genes
Genscan Genes Genscan Gene Predictions
Other RefSeq Non-Chicken RefSeq Genes
-   Literature    
Web Sequences DNA Sequences in Web Pages Indexed by Bing.com / Microsoft Research
-   mRNA and EST    
Chicken ESTs Chicken ESTs Including Unspliced
Chicken mRNAs Chicken mRNAs from GenBank
Other mRNAs Non-Chicken mRNAs from GenBank
Spliced ESTs Chicken ESTs That Have Been Spliced
-   Expression and Regulation    
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)
-   Comparative Genomics    
Zebra finch Chain/Net Zebra finch (Feb. 2013 (WashU taeGut324/taeGut2)), Chain and Net Alignments
Medium ground finch Chain/Net Medium ground finch (Apr. 2012 (GeoFor_1.0/geoFor1)), Chain and Net Alignments
Mouse Chain/Net Mouse (Dec. 2011 (GRCm38/mm10)), Chain and Net Alignments
Lamprey Chain/Net Lamprey (Sep. 2010 (WUGSC 7.0/petMar2)), Chain and Net Alignments
-   Variation and Repeats    
RepeatMasker Repeating Elements by RepeatMasker
All SNPs(138) Simple Nucleotide Polymorphisms (dbSNP 138)
Common SNPs(138) Simple Nucleotide Polymorphisms (dbSNP 138) Found in >= 1% of Samples
updated EVA SNP Short Genetic Variants from European Variant Archive
Interrupted Rpts Fragments of Interrupted Repeats Joined by RepeatMasker ID
Microsatellite Microsatellites - Di-nucleotide and Tri-nucleotide Repeats
Mult. SNPs(138) Simple Nucleotide Polymorphisms (dbSNP 138) That Map to Multiple Genomic Loci
Simple Repeats Simple Tandem Repeats by TRF
WM + SDust Genomic Intervals Masked by WindowMasker + SDust