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_000LVSD.1

Display Name: France/LOC_000LVSD.1/2023-07-25
G. L'Ambert, N. Gomez, K. Ramiara, C. Migne, T. Touzet, S. Zientara, G. Gonzalez, A. Duvignaud, D. Malvy, X. de Lamballerie, R. Klitting, G. Piorkowski, R. Amaral, T. Canivez, M. Gueulen, L. Pezzi, N. Ayhan, G. Durand, G. Grard, A. Fontaine & C. Bigeart

Submission details

Submission ID
PP482821.1
Submitting group
Date submitted
2025-07-07 22:44:31 UTC
Date released
2025-07-07 22:53:01 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2025-07-07 22:44insdc_ingest_userOPEN
Data use terms URL

Authors

Author affiliations
Unite des Virus Emergents, Centre National de Reference des Arbovirus

Alignment and QC metrics

Completeness
89.07%
Frame shifts
NS4B:20-33(nt:6973-7014)
Length
10591
Total ambiguous nucs
0
Total deleted nucs
9
Total frame shifts
1
Total inserted nucs
32
Total SNPs
2032
Total stop codons
0
Total unknown nucs
744

Sample details

Earliest release date
2024-12-23
Collection subdivision level 1
Nouvelle-Aquitaine
Collection country
France
Collection date
2023-07-25
Collection date (lower bound)
2023-07-25
Collection date (upper bound)
2023-07-25
Isolate name
Cx20-batch2_P0V_Zen-Pets-Res_2023-07-25

Host

Host name scientific
Culicidae
Host taxon id

INSDC

INSDC accession
NCBI release date
2024-12-23
NCBI update date
2024-12-23

Lineage

Lineage
2

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • T180A
  • T199C
  • C204T
  • C210T
  • C216G
  • G219A
  • G222C
  • A231T
  • T234C
  • C246T
  • G261A
  • A267T
  • T273C
  • C282T
  • A285T
  • A288G
  • T297C
  • C298A
    • Deletions
    6995-7003
    Insertions
    ins_7014:G, ins_10503:NNNGGTTTTATTGAGAATGG, ins_6981:AGAGAC, ins_6972:AAGCC

    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: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

    • 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: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:D170N
  • NS5:R177K
  • NS5:V181I
  • NS5:K190R
  • NS5:L197T
  • NS5:R224H
  • NS5:V229I
  • NS5:R247K
  • NS5:Y254F

    • capsid

  • 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:20:P

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