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_000SB5U.1

China/LOC_000SB5U.1/2016-04
S. Shen, A. Moming, T. Luo, C. Chang, Y. Fang, J. Wang, C. Kou, C. Wang, Z. Su, Y. Zhang, S. Tang, Q. Wu, X. Duan, L. Zhu, X. Liu, R. An, J. Shi, J. Yang, Z. Zhang, J. Liang, R. Guo, H. Wang, S. Sun, Z. Hu & F. Deng

Wuhan Institute of Virology, Chinese Academy of Sciences, State Key Laboratory of Virology

Sample details

Collection date
2016-04
Earliest release date
2019-04-02
Sampling location
China
Isolate name
YL16204

Data use terms

Data use terms
OPEN
Data use terms URL

INSDC

NCBI release date
2019-04-02
INSDC accession L segment
INSDC accession M segment
INSDC accession S segment

Host

Host

Submission details

Submission ID
MH688499.1.L/MH688498.1.M/MH688497.1.S
Submitting group
Date submitted
2026-07-08 10:17:01 UTC
Date released
2026-07-08 10:20:21 UTC

Clade & Lineage

Closest reference L segment
singleReference (variant)
Closest reference M segment
M (OR047158.1) (variant)
Closest reference S segment
S1 (OL774851.1) (variant)

Files

Annotations

Alignment and QC

Total SNPs L segment
1517
Total inserted nucs L segment
50
Total deleted nucs L segment
2
Length L segment
12156 (100%)
Total SNPs M segment
1186
Total inserted nucs M segment
29
Total deleted nucs M segment
49
Length M segment
5379 (100%)
Total SNPs S segment
235
Total inserted nucs S segment
16
Length S segment
1673 (91.7%)

Nucleotide mutations

Mutations called relative to the NC_005301.3, OR047158.1 & OL774851.1 references

Substitutions

L segment

  • G23T
  • G32A
  • A35G
  • A42G
  • G43C
  • T49C
  • C59T
  • G71C
  • G93A
  • A109G
  • G112A
  • T131A
  • T139C
  • C148T
  • T151C
  • T160C
  • T163C
  • C193T

M segment

  • C3T
  • A5T
  • G6C
  • C7A
  • G8A
  • C9A
  • C10G
  • G11A
  • C15A
  • C17T
  • C18T
  • C21G
  • G24A
  • G29A
  • C30G
  • G31T
  • G32A
  • G36A

S segment

  • T16A
  • C22A
  • C31G
  • T32C
  • G34A
  • G35A
  • A45G
  • C81T
  • A84G
  • A98T
  • A102G
  • C126T
  • T141C
  • C144T
  • C150T
  • T166C
  • A173G
  • G174A
Deletions

L segment

67, 68

M segment

229-234, 509-511, 5244-5247, 5271-5306
Insertions

L segment

ins_11928:TG, ins_12092:CCTTCTCTACCATTCATTTCAGTTTCACTATTTCCAGGGTGTGGGGGG

M segment

ins_39:GTC, ins_5401:TGCGTGCCGCCACTATATCTTTGAGA

S segment

ins_0:TCTCAAAGAAACACGT

Amino acid substitutions

Substitutions called relative to the NC_005301.3, OR047158.1 & OL774851.1 references

Substitutions

GPC

  • GPC:E6K
  • GPC:H7F
  • GPC:V14I
  • GPC:F15L
  • GPC:Q17H
  • GPC:I18L
  • GPC:S21G
  • GPC:G23V
  • GPC:L25V
  • GPC:A26T
  • GPC:D27G
  • GPC:E28G
  • GPC:A29V
  • GPC:R30E
  • GPC:M35S
  • GPC:G38A
  • GPC:A39I
  • GPC:T40P

NP

  • NP:Y20F
  • NP:K45R
  • NP:D116E
  • NP:N125D
  • NP:A146T
  • NP:N150H
  • NP:Q179L
  • NP:D199E
  • NP:D262N
  • NP:R270K
  • NP:M353L
  • NP:K358R
  • NP:R428K

RdRp

  • RdRp:S6N
  • RdRp:S19T
  • RdRp:Y60N
  • RdRp:R63H
  • RdRp:S67L
  • RdRp:R80K
  • RdRp:V82I
  • RdRp:T163A
  • RdRp:A168T
  • RdRp:M172V
  • RdRp:R174K
  • RdRp:A177T
  • RdRp:S205P
  • RdRp:N206Y
  • RdRp:I223M
  • RdRp:K275R
  • RdRp:I279V
  • RdRp:P496S
Deletions

GPC

GPC:58, GPC:59, GPC:147
Insertions
N/A

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