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_000HDGN.1

Display Name: USA/LOC_000HDGN.1/2006-08-29
R. Shabman, S. R. Das, R. A. Halpin, M. Shilts, N. Fedorova, V. Puri, P. Amedeo, S. Shrivastava, J. Maffei, A. Dupuis, S. Jones, B. Backenson, S. Zink, A. Ciota & L. Kramer

Sample details

Collection date
2006-08-29
Collection date (lower bound)
2006-08-29
Collection date (upper bound)
2006-08-29
Earliest release date
2016-08-02
Collection country
USA
Collection subdivision level 1
Orleans Co., NY

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2025-12-05 17:40insdc_ingest_userOPEN
Data use terms URL

Authors

Author affiliations
J. Craig Venter Institute

INSDC

NCBI release date
2016-08-02
NCBI update date
2016-08-02
INSDC accession
Bioproject accession

Host

Host taxon id
Host name scientific
Cyanocitta cristata

Alignment and QC metrics

Length
10787
Total SNPs
31
Total inserted nucs
0
Total deleted nucs
0
Total ambiguous nucs
0
Total unknown nucs
0
Total frame shifts
0
Frame shifts
[]
Completeness
97.81%
Stop codons
[]
Total stop codons
0

Submission details

Submission ID
KX547229.1
Submitting group
Date submitted
2025-12-05 17:40:24 UTC
Date released
2025-12-05 17:57:12 UTC

Lineage

Lineage
1A

Files

Annotations

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • C210T
  • T592C
  • A630G
  • T1442C
  • C1465T
  • C2466T
  • C2692T
  • C2925T
  • C3276T
  • C3837T
  • A4074G
  • C4107T
  • A4146G
  • C4803T
  • C4986T
  • G5280A
  • G5544A
  • T5745C
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Mutations called relative to the NC_009942.1 reference

    Substitutions

    NS2A

  • NS2A:I183M

    • env

  • env:V159A
  • env:L167F

    • prM

  • prM:Y43H
    • Deletions
    None
    Insertions
    None

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