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_000L2MG.1

Display Name: USA/LOC_000L2MG.1/2016-08-25
Grubaugh, N.; Matteson, N.; Gangavarupa, K.; Smith, R.; Andersen, K.

Submission details

Submission ID
OQ721817.1
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
OQ721817.1
NCBI release date
2023-08-02
NCBI update date
2023-08-02

Alignment states and QC metrics

Completeness
90.66%
Length
10302
Total ambiguous nucs
1
Total deleted nucs
0
Total frame shifts
0
Total inserted nucs
0
Total SNPs
84
Total stop codons
0
Total unknown nucs
302

Sample details

Earliest release date
2023-08-02
Collection subdivision level 1
Story, Iowa
Collection country
USA
Collection date
2016-08-25
Collection date (lower bound)
2016-08-25
Collection date (upper bound)
2016-08-25

Host

Host name scientific
Culex pipiens
Host taxon id
7175

Lineage

Lineage
1A

Nucleotide mutations

Substitutions

  • C340T
  • C423T
  • C435T
  • A630G
  • G741A
  • T928C
  • T1442C
  • C1465T
  • G1662A
  • C1750T
  • C2109T
  • C2304T
  • C2982T
  • C3249T
  • C3501T
  • T3528C
  • C3891T
  • C3912T
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Substitutions

    NS2A

  • NS2A:R188K

    • NS3

  • NS3:E306D

    • NS4B

  • NS4B:I240M

    • NS5

  • NS5:K314R

    • env

  • env:V159A
  • env:L167F

    • prM

  • prM:F155L
    • Deletions
    None
    Insertions
    None