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_000HCYQ.1

Display Name: USA/LOC_000HCYQ.1/2006-09-11
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
2006-09-11
Collection date (lower bound)
2006-09-11
Collection date (upper bound)
2006-09-11
Earliest release date
2016-08-02
Collection country
USA
Collection subdivision level 1
Putnam 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
Corvus brachyrhynchos

Alignment and QC metrics

Length
10787
Total SNPs
51
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
KX547211.1
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

  • C101T
  • C205T
  • A630G
  • G1036A
  • T1407C
  • A1425G
  • T1442C
  • C1465T
  • T1923C
  • C2466T
  • C2529T
  • T2772C
  • C2778T
  • G3485A
  • C3762T
  • C3808T
  • A3939G
  • C4107T
    • Deletions
    None
    Insertions
    None

    Amino acid mutations

    Mutations called relative to the NC_009942.1 reference

    Substitutions

    NS1

  • NS1:R339K

    • NS2A

  • NS2A:L95F

    • NS3

  • NS3:I162M

    • NS4A

  • NS4A:A85T

    • NS4B

  • NS4B:S236A

    • NS5

  • NS5:K432R

    • capsid

  • capsid:S2F

    • env

  • env:V24I
  • env:V159A
  • env:L167F
    • Deletions
    None
    Insertions
    None

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