PP_000T714.1

USA/PP_000T714.1
N. Shashan, J. Makarenko, L. Tallon, L. Sadzewicz, K. Vavikolanu, A. Mehta, J. Aluvathingal, S. Nadendla, T. Myers, Y. Yan & H. Sichtig

US Food and Drug Administration, Center for Devices and Radiological Health

Sample details

Sampling location
USA (MD)
Isolate name
USA-2003

Data use terms

Data use terms
OPEN

Data use terms history

ChangedUserData use terms
2024-12-09 18:48insdc_ingest_userOPEN
Data use terms URL

Clade & Lineage

Clade
IIb
Outbreak
sh2017
Lineage
A

INSDC

INSDC accession
BioProject accession
BioSample accession
NCBI release date
2022-07-30
NCBI update date
2022-07-30

Submission details

Submission ID
OK573055.1
Submitting group
Date submitted
2024-12-09 18:47:55 UTC
Date released
2024-12-09 18:50:13 UTC
Earliest release date
2022-07-30

Alignment and QC

Length
652 (7.01%)
# of SNPs
148
# of inserted bases
33
# of deleted bases
13196
# of frame shifts
9
# of stop codons
1
Frame shifts
OPG087:5-36(nt:68869-68964),OPG087:47-55(nt:68994-69021),OPG087:68-90(nt:69058-69125),OPG087:99-103(nt:69151-69164),OPG087:108-112(nt:69178-69192),OPG087:130-133(nt:69244-69255),OPG087:137-181(nt:69265-69399),OPG087:190-195(nt:69423-69441),OPG088:87-106(nt:69546-69607)
Stop Codons
OPG086:3

Nucleotide mutations

Mutations called relative to the NC_063383.1 reference

Substitutions

  • A68655G
  • T68852C
  • A68855C
  • G68856T
  • G68859A
  • A68862T
  • G68869T
  • A68893T
  • C68898T
  • C68899A
  • T68937G
  • T68938G
  • T68941G
  • G68945A
  • T68953C
  • A68957G
  • T68962C
  • C68963T
Deletions

68660-68710, 68874-68890, 68902-68904, 68908-68935, 68947-68951, 68965-68981, 68990-68993, 69004-69009, 69022-69035, 69045-69057, 69091-69101, 69126-69141, 69165-69168, 69193-69202, 69211-69225, 69256, 69271, 69331, 69332, 69337-69342, 69352-69379, 69400-69403, 69413-69422, 69431-69434, 69446-69484, 69495-69512, 69533-69545, 69562-69576, 69608-69624, 69636-82459
Insertions

ins_68868:T, ins_69075:TT, ins_69113:CC, ins_69150:TTCC, ins_69177:T, ins_69243:ATCT, ins_69264:GT, ins_69303:TAAATGGCA, ins_69441:AC, ins_69555:GGCTG, ins_69590:C

Amino acid substitutions

Substitutions called relative to the NC_063383.1 reference

Substitutions

OPG086

  • OPG086:M1K
  • OPG086:A2V
  • OPG086:S3*
  • OPG086:R52Q

OPG087

  • OPG087:M1I
  • OPG087:L125H
  • OPG087:Y128D
  • OPG087:K198F
  • OPG087:*221Y

OPG088

  • OPG088:*125E
Deletions

OPG087

OPG087:37-46, OPG087:56-62, OPG087:64-67, OPG087:91-95, OPG087:104-107, OPG087:113-123, OPG087:134, OPG087:182, OPG087:183, OPG087:185-189, OPG087:199-219

OPG088

OPG088:107-111
Insertions

OPG088

ins_OPG088:125:QCR*GKS

Report an issue with this sequence or metadata

Create GitHub issue