UCSC Genome Browser on SARS-CoV-2 Jan. 2020/NC_045512.2 Assembly (wuhCor1)
move zoom in zoom out
NC_045512v2:25,183-28,377 3,195 bp.   Quick start guide
move start
  Click on a feature for details. Click+shift+drag to zoom in. Click side bars for track options. Drag side bars or labels up or down to reorder tracks. Drag tracks left or right to new position. Press "?" for keyboard shortcuts.   move end
Use drop-down controls below and press refresh to alter tracks displayed.
Tracks with lots of items will automatically be displayed in more compact modes.
-   Custom Tracks
MEA Seccondary Structures Rangan Das 2020 with Pubmed and Rfam annotations
TRS (CUAAAC) [+purple/-teal]
TRS (CUAAAC) [+purple/-teal] - TRS COMPLEMENT (GUUUAG) [+mustard]
-   Mapping and Sequencing
Base Position
Kim IVT Cov
ARTIC Primers V3
RAPID/Midnight Primers
Swift Primers
Crowd-Sourced Data
Addgene Plasmids
CRISPR Detection
GC Percent
Problematic Sites
RefSeq Acc
Restr Enzymes
RT-PCR Primers
Short Match
Blat Sequence
-   Genes and Gene Predictions
NCBI Genes
NCBI Proteins
Transcriptome Kim
Protein Interact.
Weizman ORFs
PDB Structures
PDB Ligand Contacts
Genscan Genes
Nextstrain Genes
PhyloCSF Genes
-   UniProt Protein Annotations
Precurs. Proteins
Protein Alignments
Protein Products
Signal Peptides
Transmem. Domains
Disulf. Bonds
Protein Domains
Other Annot.
Protease Cleavage
-   Immunology
RBD Mut Bind
RBD Mut Expr
Antib Pept Array
S Antib Pept Array
Antibody Escape
CD8 Escape Muts
CD8 RosettaMHC
IEDB Predictions
Poran HLA I
Poran HLA II
T-React. Epitopes
Validated epitopes from IEDB
-   mRNA and EST
SHAPE Struct Pyle
icSHAPE RNA Struct
Rangan RNA
-   Expression and Regulation
Kim Transcripts
Kim RNA Brkpts
Kim RNA Modific.
CpG Islands
-   Comparative Genomics
44 Bat CoVs
119 Vertebrate CoVs
Human CoV
-   Variation and Repeats
Phylogeny: Public
Phylogeny: GISAID
updated Nextstrain Clades
updated Nextstrain Mutations
Intrahost SNPs
Natural Selection
B.1.1.7 in USA
updated Nextstrain Frequency
updated Nextstrain Parsimony
Pot. pathogenic indels
Simple Repeats
Spike Mutations
Variants of Concern
WM + SDust

For information about this browser and related resources, see COVID-19 Research at UCSC.

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™.