This is a demonstration environment. It may contain non-accurate test data and should not be used for real-world applications. Data will be deleted regularly.

LOC_000Q3AW.1

USA/LOC_000Q3AW.1/2015-07-02
N. Grubaugh, S. Grewal, N. L. Matteson, K. Gangavarapu, N. Gurfield & K. Andersen

The Scripps Research Institute, Department of Immunology and Microbiology

Sample details

Collection date
2015-07-02
Earliest release date
2019-01-20
Sampling location
USA (San_Diego,California)
Isolate name
WNV/bird/San_Diego_CA_USA/2015-07-02/W553

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2026-05-27 18:32insdc_ingest_userOPEN
Data use terms URL

INSDC

NCBI release date
2019-01-20
NCBI update date
2019-01-20
INSDC accession
BioProject accession

Host

Host

Submission details

Submission ID
MH507970.1
Submitting group
Date submitted
2026-05-27 18:32:06 UTC
Date released
2026-05-27 18:54:00 UTC

Lineage

Lineage
1A

Files

Annotations

Alignment and QC

Total SNPs
84
Length
10302 (93.4%)
Amino Acid Mutations from founder clade
  • 2K:L15M
  • NS1:I236V
  • NS2A:R188K
  • NS2B:A103V
  • NS2B:V120I
  • NS3:T249P
  • NS3:I356T
  • NS4A:V85A
  • NS5:V49I
  • NS5:K177R
  • capsid:K104R
  • env:K93R
  • env:T126I
  • env:I159A
Variant
True

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • C204T
  • C340T
  • A407G
  • C435T
  • A564G
  • A630G
  • C933T
  • T940C
  • C969T
  • C1065T
  • C1170T
  • T1442C
  • C1465T
  • G1482A
  • G1662A
  • C1707T
  • C1750T
  • T1932C
Deletions
N/A
Insertions
N/A

Amino acid substitutions

Substitutions called relative to the NC_009942.1 reference

Substitutions

NS1

  • NS1:I236V

NS2A

  • NS2A:R188K

NS2B

  • NS2B:V120I

NS5

  • NS5:V49I

capsid

  • capsid:K104R

env

  • env:V159A
  • env:L167F
Deletions
N/A
Insertions
N/A

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