UK COVID Variant Sequence in San Diego County California

[niman]

Andersen lab at Scripps Research has released (at GISAID) a UK COVID Variant sequence, USA/CA-SEARCH-5574/2020

Edited December 30, 2020 by niman

[niman]

USA/CA-SEARCH-5574/2020 matched UK variant with 3 AAs deleted in Spike protein, 3 AAs deleted in NSP6 and Q27 stop codon in NS8.

map update

https://www.google.com/maps/d/u/1/edit?mid=1aQDSL2LwQFbuoCAg_nIOPK8D-LIJ5MYd&ll=32.62757266013158%2C-118.08271566452024&z=7

 

Edited December 30, 2020 by niman

[niman]

LOCUS       MW422255               29763 bp    RNA     linear   VRL 30-DEC-2020
DEFINITION  Severe acute respiratory syndrome coronavirus 2 isolate
            SARS-CoV-2/human/USA/SEARCH-5574-SAN/2020, complete genome.
ACCESSION   MW422255
VERSION     MW422255.1
KEYWORDS    .
SOURCE      Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)
  ORGANISM  Severe acute respiratory syndrome coronavirus 2
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Nidovirales; Cornidovirineae; Coronaviridae; Orthocoronavirinae;
            Betacoronavirus; Sarbecovirus.
REFERENCE   1  (bases 1 to 29763)
  AUTHORS   SEARCH Alliance,S.D.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-DEC-2020) Department of Immunology, The Scripps
            Research Institute, 10550 N Torrey Pines Rd, San Diego, CA 92122,
            USA
COMMENT     ##Assembly-Data-START##
            Assembly Method       :: artic-ncov2019 v. 1.0
            Sequencing Technology :: Nanopore
            ##Assembly-Data-END##
FEATURES             Location/Qualifiers
     source          1..29763
                     /organism="Severe acute respiratory syndrome coronavirus
                     2"
                     /mol_type="genomic RNA"
                     /isolate="SARS-CoV-2/human/USA/SEARCH-5574-SAN/2020"
                     /isolation_source="nasopharyngeal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:2697049"
                     /country="USA: San Diego, California"
                     /collection_date="2020-12-29"

https://www.ncbi.nlm.nih.gov/nucleotide/MW422255.1?report=genbank&log$=nucltop&blast_rank=1&RID=ZEP33G4G016