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_000L60M.1

Display Name: Germany/LOC_000L60M.1/2020-08

Sample details

Collection date
2020-08
Collection date (lower bound)
2020-08-01
Collection date (upper bound)
2020-08-31
Earliest release date
2023-03-02
Collection country
Germany
Isolate name
ED-I-245-20

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2025-09-12 15:10insdc_ingest_userOPEN
Data use terms URL

Authors

Author affiliations
Friedrich-Loeffler-Institute, Federal Research Institute for Animal Health, Institute of Diagnostic Virology, Suedufer 10, Greifswald - Insel Riems, Mecklenburg - Western Pomerania, 17493

INSDC

NCBI release date
2023-03-02
NCBI update date
2023-03-03
INSDC accession
Bioproject accession
Biosample accession

Host

Host taxon id
Host name scientific
Phoenicopterus sp.

Alignment and QC metrics

Length
10988
Total SNPs
2219
Total inserted nucs
35
Total deleted nucs
14
Total ambiguous nucs
0
Total unknown nucs
0
Total frame shifts
0
Completeness
99.44%
Total stop codons
0

Submission details

Submission ID
OX442280.1
Submitting group
Date submitted
2025-09-12 15:10:02 UTC
Date released
2025-09-12 15:24:48 UTC

Lineage

Lineage
2

Files

Annotations

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • C52T
  • C123T
  • G126A
  • G128A
  • A156T
  • T167G
  • G168A
  • T180A
  • T199C
  • C204T
  • C210T
  • C216G
  • G219A
  • G222C
  • A231T
  • T234C
  • C246T
  • C255T
    • Deletions
    6994-6996, 10421, 10487-10494, 10904, 10921
    Insertions
    ins_7006:TTGAGA, ins_10408:TGTATTGAGT, ins_10417:GTTGTAGTGTTTA, ins_10427:G, ins_10462:A, ins_10483:GTT, ins_10501:T

    Amino acid mutations

    Mutations called relative to the NC_009942.1 reference

    Substitutions

    2K

  • 2K:M15L

    • NS1

  • NS1:S9G
  • NS1:Y34F
  • NS1:K44R
  • NS1:K51A
  • NS1:V71I
  • NS1:E94N
  • NS1:S99A
  • NS1:T105A
  • NS1:I113M
  • NS1:L123I
  • NS1:V135I
  • NS1:K141E
  • NS1:Q146A
  • NS1:L153M
  • NS1:K170R
  • NS1:V171I
  • NS1:S174T
  • NS1:L192M

    • NS2A

  • NS2A:M34I
  • NS2A:L38M
  • NS2A:I39L
  • NS2A:S68A
  • NS2A:M90L
  • NS2A:N104S
  • NS2A:V112A
  • NS2A:H119Y
  • NS2A:R122K
  • NS2A:Q123N
  • NS2A:I124V
  • NS2A:L126S
  • NS2A:I129V
  • NS2A:A137S
  • NS2A:T147S
  • NS2A:T150N
  • NS2A:R167K
  • NS2A:I183V

    • NS2B

  • NS2B:A41V
  • NS2B:S61T
  • NS2B:M88I
  • NS2B:V103A
  • NS2B:V120I

    • NS3

  • NS3:K11R
  • NS3:Q92H
  • NS3:F130Y
  • NS3:D172E
  • NS3:I175A
  • NS3:R203K
  • NS3:R215K
  • NS3:A233S
  • NS3:P249H
  • NS3:N253S
  • NS3:V283I
  • NS3:S302A
  • NS3:S331A
  • NS3:L336M
  • NS3:S347T
  • NS3:T356V
  • NS3:V384I
  • NS3:T436E

    • NS4A

  • NS4A:I6V
  • NS4A:K11R
  • NS4A:T64S
  • NS4A:M65L
  • NS4A:A85V
  • NS4A:V86I
  • NS4A:V89A

    • NS4B

  • NS4B:S11N
  • NS4B:F17L
  • NS4B:Q19H
  • NS4B:R20K
  • NS4B:I21P
  • NS4B:V23T
  • NS4B:K24R
  • NS4B:N26T
  • NS4B:F27T
  • NS4B:S28L
  • NS4B:M29G
  • NS4B:G30V
  • NS4B:T116A
  • NS4B:I168V
  • NS4B:L183M
  • NS4B:K193R
  • NS4B:I202T

    • NS5

  • NS5:Q18H
  • NS5:I33T
  • NS5:K45R
  • NS5:V49I
  • NS5:I78V
  • NS5:R101K
  • NS5:C139A
  • NS5:C140S
  • NS5:I162V
  • NS5:R177K
  • NS5:V181I
  • NS5:K190R
  • NS5:L197T
  • NS5:R224H
  • NS5:V229I
  • NS5:R247K
  • NS5:Y254F
  • NS5:R287K

    • capsid

  • capsid:S11N
  • capsid:V24G
  • capsid:S100T
  • capsid:K108T
  • capsid:T109A
  • capsid:I111F
  • capsid:A112T
  • capsid:V113I
  • capsid:M114L
  • capsid:I115L
  • capsid:S120C
  • capsid:V121A

    • env

  • env:E55D
  • env:T64S
  • env:K71R
  • env:D83E
  • env:R93K
  • env:S122T
  • env:I126T
  • env:R128W
  • env:T129I
  • env:L131Q
  • env:V159A
  • env:L167F
  • env:A172S
  • env:N199S
  • env:T205S
  • env:T208A
  • env:T210S
  • env:V232T

    • prM

  • prM:M44L
  • prM:D46E
  • prM:S57A
  • prM:A73S
  • prM:M112L
  • prM:V156A
  • prM:V157I
    • Deletions
    None
    Insertions
    ins_NS4B:31:N

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