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_000M12L.1

Display Name: Russia/LOC_000M12L.1/2021
Vorovitch, M. F.; Tuchynskaya, K. K.; Kruglov, Y. A.; Peunkov, N. S.; Mostipanova, G. F.; Kholodilov, I. S.; Ivanova, A. L.; Fedina, M. P.; Gmyl, L. V.; Morozkin, E. S.; Roev, G. V.; Karan, L. S.; Karganova, G. G.

Submission details

Submission ID
PQ679039.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2025-04-03 23:20:52 UTC
Date released
2025-04-03 23:29:36 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2025-04-03 23:20insdc_ingest_userOPEN
Data use terms URL
https://#TODO-MVP/open

Authors

Author affiliations
Chumakov Federal Scientific Center for Research and Development of Immune-and-Biological Products of RAS, Laboratory of biology of arboviruses

Alignment and QC metrics

Completeness
98.75%
Length
10912
Total ambiguous nucs
0
Total deleted nucs
19
Total frame shifts
0
Total inserted nucs
40
Total SNPs
2203
Total stop codons
0
Total unknown nucs
0

Sample details

Earliest release date
2025-01-18
Collection subdivision level 1
Moscow
Collection country
Russia
Collection date
2021
Collection date (lower bound)
2021-01-01
Collection date (upper bound)
2021-12-31

Host

Host name scientific
Homo sapiens
Host taxon id
9606

INSDC

INSDC accession
PQ679039.1
NCBI release date
2025-01-18
NCBI update date
2025-01-18

Lineage

Lineage
2

Nucleotide mutations

Mutations called relative to the NC_009942.1 reference

Substitutions

  • C123T
  • G126A
  • G128A
  • A156T
  • T167G
  • G168A
  • T180A
  • T199C
  • C204T
  • C210T
  • C216G
  • G219A
  • G222C
  • A231T
  • T234C
  • C246T
  • C255T
  • G261A
    • Deletions
    6994-6996, 10421, 10435, 10444, 10467-10470, 10488-10494, 10904, 10921
    Insertions
    ins_10408:TGTATTGAGT, ins_7006:TTGAGA, ins_10440:TT, ins_10417:GTTGTAGTGTTCA, ins_10461:AG, ins_10501:T, ins_10452:AGA, ins_10427:G, ins_10483:GT

    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:V221I
  • NS3:A233S
  • NS3:P249H
  • NS3:N253S
  • NS3:V283I
  • NS3:S302A
  • NS3:S331A
  • NS3:L336M
  • NS3:S347T
  • NS3:T356V
  • NS3:V384I

    • 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:V159M
  • 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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