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_000L2U2.1

Display Name: USA/LOC_000L2U2.1/2010-09-28
N. Grubaugh, N. Matteson, K. Gangavarupa, C. Barker, S. Wheeler, Y. Fang, L. Coffey, W. Reisen & K. Andersen

Sample details

Collection date
2010-09-28
Collection date (lower bound)
2010-09-28
Collection date (upper bound)
2010-09-28
Earliest release date
2023-08-02
Collection country
USA
Collection subdivision level 1
Yolo, California

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2025-12-08 10:37insdc_ingest_userOPEN
Data use terms URL

Authors

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

INSDC

NCBI release date
2023-08-02
NCBI update date
2023-08-02
INSDC accession
Bioproject accession

Host

Host taxon id
Host name scientific
Culex tarsalis

Alignment and QC metrics

Length
10302
Total SNPs
55
Total inserted nucs
0
Total deleted nucs
0
Total ambiguous nucs
0
Total unknown nucs
448
Total frame shifts
0
Frame shifts
[]
Completeness
89.35%
Stop codons
[]
Total stop codons
0

Submission details

Submission ID
OQ721807.1
Submitting group
Date submitted
2025-12-08 10:37:00 UTC
Date released
2025-12-08 10:52:59 UTC

Lineage

Lineage
1A

Files

Annotations

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • T477C
  • A630G
  • C660T
  • T1332C
  • T1442C
  • G1455A
  • C1465T
  • A2088G
  • C2466T
  • A3219T
  • C3570T
  • C4107T
  • C4129T
  • A4146G
  • C4272T
  • T4353C
  • T4422C
  • T4542C
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Mutations called relative to the NC_009942.1 reference

    Substitutions

    2K

  • 2K:S19G

    • NS3

  • NS3:I162M

    • NS5

  • NS5:H231Q

    • env

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

    Report an issue with this sequence or metadata

    Create GitHub issue