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PPD_00EPYVJ.1

Italy/PPD_00EPYVJ.1/2025-07-18
I. Mussetto, A. Bongiovanni, F. Colavita, C. Giambi, M. G. Sala, C. Del Borgo, F. Carletti, M. T. Scicluna, A. Zerbetto, A. Corpolongo, F. Romiti, M. B. Valli, S. Vaglio, R. Giammattei, P. Scognamiglio, G. De Carli, A. Agresta, C. De Liberato, G. Di Luzio, F. Micarelli, E. Nicastri, A. Siddu, V. Ficarelli, E. Girardi, ..., G. Chillemi

INMI Lazzaro Spallanzani IRCCS, Laboratory of Virology / Bioinformatics Research Unit in Infectious Diseases

Sample details

Collection date
2025-07-18
Sampling location
Italy (Lazio region)
Isolate name
INMI-Pt2

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2026-04-15 08:10insdc_ingest_userOPEN
Data use terms URL

Lineage

Lineage
2

INSDC

INSDC accession
NCBI release date
2025-11-04
NCBI update date
2025-11-04

Host

Host

Submission details

Submission ID
PX024393.1
Submitting group
Date submitted
2026-04-15 08:09:02 UTC
Date released
2026-04-15 09:02:59 UTC
Earliest release date
2025-11-04

Alignment and QC

Length
11044 (99.9%)
# of SNPs
2226
# of inserted bases
38
# of deleted bases
17

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, 10467-10470, 10487-10494, 10904, 10921
Insertions

ins_7006:TTGAGA, ins_10408:TGTATTGAGT, ins_10417:GTTGTAGTGTTTA, ins_10452:AGA, ins_10461:AG, ins_10483:GAT, ins_10501:T

Amino acid substitutions

Substitutions 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:V119I
  • NS2B:V120I

NS3

  • NS3:K11R
  • NS3:Q92H
  • NS3:F130Y
  • NS3:D172E
  • NS3:I175A
  • NS3:R203K
  • NS3:R215K
  • NS3:A233S
  • NS3:N253S
  • NS3:V283I
  • NS3:S302A
  • NS3:S331A
  • NS3:L336M
  • NS3:S347T
  • NS3:T356V
  • NS3:V384I
  • NS3:T436E
  • NS3:E439D

NS4A

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

NS4B

  • NS4B:S11N
  • NS4B:S14G
  • NS4B:F17L
  • NS4B:Q19H
  • NS4B:R20K
  • NS4B:I21P
  • NS4B:V23T
  • NS4B:K24R
  • NS4B:N26T
  • NS4B:F27T
  • NS4B:S28L
  • NS4B:M29G
  • NS4B:G30V
  • NS4B:T48A
  • 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:V159T
  • 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
N/A
Insertions

NS4B

ins_NS4B:31:N

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