Highlight
Visible Tracks Hide group
Short Match Hide Dense Squish Pack Full	NCBI Genes Hide Dense Squish Pack Full	Precurs. Proteins Hide Dense Squish Pack Full	Protein Products Hide Dense Squish Pack Full	Highlights Hide Dense Squish Pack Full	Protein Domains Hide Dense Squish Pack Full	Mutations Hide Dense Squish Pack Full	Antibody Escape Hide Show
Drug Resistance Mutations Hide Dense Squish Pack Full	Recomb. Breakpoints Hide Dense Squish Pack Full	new Variants of Concern Hide Dense Squish Pack Full
Hub: EyeBrowse Hide group
Track hub error : badly formed url https:/hpc.nih.gov/eyebrowse/hub.txt, expected :// after the protocol
Hub: EPD Viewer Hub Hide group
Track hub error : badly formed url https:/epd.expasy.org/epd/ucsc/epdHub/epdHub.txt, expected :// after the protocol
Hub: Mammal and Bird Alignment (605 species) Hide group
Track hub error : badly formed url https:/cgl.gi.ucsc.edu/data/cactus/605-vertebrate-2020-hub/Dromaius_novaehollandiae/trackDb.txt, expected :// after the protocol
Hub: VGP primary Hide group
Track hub error : badly formed url https:/hgdownload.soe.ucsc.edu/hubs/VGP/hub.txt, expected :// after the protocol
Hub: Bird Alignment (363 species) Hide group
Track hub error : badly formed url https:/cgl.gi.ucsc.edu/data/cactus/363-avian-2020-hub/Gymnorhina_tibicen/trackDb.txt, expected :// after the protocol
Hub: CCGP Hide group
Track hub error : badly formed url https:/hgdownload.soe.ucsc.edu/hubs/CCGP/hub.txt, expected :// after the protocol
Hub: Bird assemblies Hide group
Track hub error : badly formed url https:/hgdownload.soe.ucsc.edu/hubs/birds/hub.txt, expected :// after the protocol
Hub: Vertebrate assemblies Hide group
Track hub error : badly formed url https:/hgdownload.soe.ucsc.edu/hubs/vertebrate/hub.txt, expected :// after the protocol
Hub: Exp/Meth VNTR hub Hide group
Track hub error : badly formed url https:/raw.githubusercontent.com/AndyMSSMLab/UCSC_exp_meth_VNTR/main/hub.txt, expected :// after the protocol
Mapping and Sequencing Hide group
Base Position Hide Dense Full	Nanopore coverage Hide Dense Full	ARTIC Primers V3 Hide Dense Squish Pack Full	ARTIC Primers V4 Hide Dense Squish Pack Full	ARTIC Primers V4.1 Hide Dense Squish Pack Full	RAPID/Midnight Primers Hide Dense Squish Pack Full	Swift Primers Hide Dense Squish Pack Full	Crowd-Sourced Data Hide Dense Squish Pack Full
NEB VarSkip Primers Hide Dense Squish Pack Full	Cas13 CRISPR Hide Dense Squish Pack Full	Addgene Plasmids Hide Dense Squish Pack Full	Assembly Hide Dense Squish Pack Full	CRISPR Detection Hide Dense Squish Pack Full	Gap Hide Dense Squish Pack Full	GC Percent Hide Dense Full	INSDC Hide Dense Squish Pack Full
Problematic Sites Hide Dense Squish Pack Full	RefSeq Acc Hide Dense Squish Pack Full	Restr Enzymes Hide Dense Squish Pack Full	RT-PCR Primers Hide Dense Squish Pack Full	Short Match Hide Dense Squish Pack Full
Genes and Gene Predictions Hide group
NCBI Genes Hide Dense Squish Pack Full	NCBI Proteins Hide Dense Squish Pack Full	Subgenomic Canonical Hide Dense Squish Pack Full	Subgenomic Breakpts Hide Dense Full	Subgenomic Observed Hide Dense Squish Pack Full	Subgenomic RNA Modif. Hide Dense Squish Pack Full	Protein Interact. Hide Dense Squish Pack Full	Weizman ORFs Hide Show
PDB Structures Hide Dense Squish Pack Full	PDB Ligand Contacts Hide Dense Squish Pack Full	AUGUSTUS Hide Dense Squish Pack Full	Genscan Genes Hide Dense Squish Pack Full	Nextstrain Genes Hide Dense Squish Pack Full	PhyloCSF Genes Hide Dense Squish Pack Full
UniProt Protein Annotations Hide group
Precurs. Proteins Hide Dense Squish Pack Full	Protein Alignments Hide Dense Squish Pack Full	Protein Products Hide Dense Squish Pack Full	Highlights Hide Dense Squish Pack Full	Signal Peptides Hide Dense Squish Pack Full	Extracellular Hide Dense Squish Pack Full	Transmem. Domains Hide Dense Squish Pack Full	Cytoplasmic Hide Dense Squish Pack Full
Disulf. Bonds Hide Dense Squish Pack Full	Protein Domains Hide Dense Squish Pack Full	Glycosyl/Phosph. Hide Dense Squish Pack Full	Mutations Hide Dense Squish Pack Full	Other Annot. Hide Dense Squish Pack Full	Structure Hide Dense Squish Pack Full	Repeats Hide Dense Squish Pack Full	Protease Cleavage Hide Dense Squish Pack Full
Immunology Hide group
RBD Mut Bind Hide Dense Full	RBD Mut Expr Hide Dense Full	Antib Pept Array Hide Show	S Antib Pept Array Hide Show	Antibody Escape Hide Show	CD8 Escape Muts Hide Dense Squish Pack Full	CD8 RosettaMHC Hide Dense Squish Pack Full	IEDB Predictions Hide Dense Squish Pack Full
Poran HLA I Hide Dense Squish Pack Full	Poran HLA II Hide Dense Squish Pack Full	T-React. Epitopes Hide Dense Squish Pack Full	Vaccines Hide Dense Squish Pack Full	Validated epitopes from IEDB Hide Dense Squish Pack Full
mRNA and EST Hide group
SHAPE Struct Pyle Hide Dense Full	icSHAPE RNA Struct Hide Dense Full	Rangan RNA Hide Dense Squish Pack Full	Rfam Hide Dense Squish Pack Full
Expression and Regulation Hide group
CpG Islands Hide Show
Comparative Genomics Hide group
44 Bat CoVs Hide Dense Squish Pack Full	119 Vertebrate CoVs Hide Dense Squish Pack Full	PhyloCSF Hide Show	Human CoV Hide Dense Squish Pack Full
Variation and Repeats Hide group
Phylogeny: Public Hide Dense Squish Pack Full	updated Nextstrain Clades Hide Dense Squish Pack Full	Intrahost SNPs Hide Dense Squish Pack Full	Nat. Selection (Pond) Hide Dense Squish Pack Full	Drug Resistance Mutations Hide Dense Squish Pack Full	Galaxy ENA mutations Hide Show	Microdeletions Hide Dense Squish Pack Full	updated Nextstrain Frequency Hide Dense Full
updated Nextstrain Parsimony Hide Dense Full	Pot. pathogenic indels Hide Dense Squish Pack Full	Predicted Resistance Hide Dense Squish Pack Full	Recomb. Breakpoints Hide Dense Squish Pack Full	Simple Repeats Hide Dense Squish Pack Full	Spike Mutations Hide Dense Squish Pack Full	new Variants of Concern Hide Dense Squish Pack Full	WM + SDust Hide Dense Squish Pack Full

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GISAID data displayed in the Genome Browser are subject to GISAID's Terms and Conditions. SARS-CoV-2 genome sequences and metadata are available for download from GISAID EpiCoV™.