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_000L3C0.1

Display Name: USA/LOC_000L3C0.1/2007-10-25
Grubaugh, N.; Matteson, N.; Gangavarupa, K.; Gurfield, N.; Grewal, S.; Tuncap, J.; Andersen, K.

Submission details

Submission ID
OQ721841.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-12-29 12:39:12 UTC
Date released
2024-12-29 12:46:26 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2024-12-29 12:39insdc_ingest_userOPEN
Data use terms URL
https://#TODO-MVP/open

Authors

Author affiliations
The Scripps Research Institute, Department of Immunology and Microbiology

INSDC

Bioproject accession
PRJNA472981
INSDC accession
OQ721841.1
NCBI release date
2023-08-02
NCBI update date
2023-08-02

Alignment states and QC metrics

Completeness
90.13%
Length
10302
Total ambiguous nucs
0
Total deleted nucs
0
Total frame shifts
0
Total inserted nucs
0
Total SNPs
49
Total stop codons
0
Total unknown nucs
362

Sample details

Earliest release date
2023-08-02
Collection subdivision level 1
San Diego, California
Collection country
USA
Collection date
2007-10-25
Collection date (lower bound)
2007-10-25
Collection date (upper bound)
2007-10-25

Host

Host name scientific
Accipitridae
Host taxon id
56259

Lineage

Lineage
1A

Nucleotide mutations

Substitutions

  • T428G
  • A630G
  • C660T
  • T1032C
  • T1442C
  • C1465T
  • A1683G
  • G2257A
  • C2466T
  • T2727C
  • C3570T
  • C3771T
  • C4107T
  • A4146G
  • T4212C
  • C4272T
  • G4525T
  • T4542C
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Substitutions

    NS2B

  • NS2B:V103F

    • NS4B

  • NS4B:F119L

    • capsid

  • capsid:I111S

    • env

  • env:V159A
  • env:L167F
  • env:V431I
    • Deletions
    None
    Insertions
    None