GS_00GC6P9.1

USA/GS_00GC6P9.1/2025-10-21
A. USDA Swine Influenza Surveillance & M. Sturos

USDA

Submission details

Submission ID
PX596416.1.seg4/PX596417.1.seg6
Submitting group
Date submitted
2025-11-26 04:56:42 UTC
Date released
2025-11-26 04:57:40 UTC

Clade

Clade HA
C.1.9
Clade NA
D

Sample details

Collection country
USA
Collection date
2025-10-21
Isolate name
A/swine/Minnesota/A02980717/2025

Host

Host

INSDC

INSDC accession seg4
INSDC accession seg6
NCBI release date
2025-11-24

INSDC seg4

subtype_seg4
H1

INSDC seg6

subtype_seg6
N1

Alignment and QC

Length seg4
1701 (97%)
Total ambiguous nucs seg4
1
Total SNPs seg4
95
Length seg6
1410 (98.4%)
Total SNPs seg6
20

Nucleotide mutations

Mutations called relative to the NC_026438.1, NC_026435.1, NC_026437.1, CY121680.1, NC_026436.1, MW626056.1, NC_026431.1 & NC_026432.1 references

Substitutions

seg4

  • C42A
  • A47G
  • G57A
  • A119G
  • T161C
  • C164T
  • G188A
  • A231C
  • C293A
  • T308A
  • G311A
  • C318T
  • G322A
  • G338T
  • G360A
  • A392T
  • G416A
  • A429G

seg6

  • G112A
  • A428G
  • C452A
  • G607A
  • G611A
  • A785G
  • T799C
  • A818G
  • T890C
  • C893T
  • G914T
  • G938A
  • A1049G
  • T1056G
  • C1187T
  • A1193G
  • G1253A
  • G1365A
  • T1403C
  • G1415T
Deletions
N/A
Insertions
N/A

Amino acid substitutions

Substitutions called relative to the NC_026438.1, NC_026435.1, NC_026437.1, CY121680.1, NC_026436.1, MW626056.1, NC_026431.1 & NC_026432.1 references

Substitutions

HA1

  • HA1:K54Q
  • HA1:S74R
  • HA1:P83S
  • HA1:S84N
  • HA1:D97N
  • HA1:T120A
  • HA1:N129D
  • HA1:N156K
  • HA1:L161I
  • HA1:S162N
  • HA1:K163Q
  • HA1:S164T
  • HA1:K169Q
  • HA1:S183P
  • HA1:S185I
  • HA1:A186T
  • HA1:Q189E
  • HA1:S203T

HA2

  • HA2:E47K
  • HA2:I91V
  • HA2:R106K
  • HA2:S124N
  • HA2:E172K
  • HA2:E179D
  • HA2:I183T

NA

  • NA:S35N
  • NA:S200N
  • NA:I264T
  • NA:S350A
  • NA:V453M
  • NA:K469N

SigPep

  • SigPep:L8M
  • SigPep:A13T
Deletions
N/A
Insertions
N/A