PP_000RBRP.2

Display Name: China/PP_000RBRP.2/2021-04-15
Wang, J.; Wang, B.; Xia, X.; Zhou, J.; Wang, Y.

Submission details

Submission ID
OQ633002.1.L/OQ633004.1.S
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-09-26 15:01:57 UTC
Date released
2024-09-26 15:20:44 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2024-08-27 12:11insdc_ingest_userOPEN
Data use terms URL
https://pathoplexus.org/about/terms-of-use/open-data

Authors

Author affiliations
Kunming University of Science and Technology, Faculty of Life Science and Technology

Alignment states and QC metrics L

Completeness L
97.77%
Frame shifts L
RdRp:778-779(nt:2406-2413)
Length L
11838
Total ambiguous nucs L
0
Total deleted nucs L
4
Total frame shifts L
1
Total inserted nucs L
4
Total SNPs L
2397
Total unknown nucs L
0

Alignment states and QC metrics S

Completeness S
86.66%
Length S
1449
Total ambiguous nucs S
0
Total deleted nucs S
0
Total frame shifts S
0
Total inserted nucs S
0
Total SNPs S
259
Total unknown nucs S
0

Sample details

Collection country
China
Collection date
2021-04-15
Isolate name
YNDQ-L415G

Host

Host name scientific
Capricornis milneedwardsii
Host taxon id
1073286

INSDC

INSDC accession L
OQ633002.1
INSDC accession S
OQ633004.1
NCBI release date
2023-05-30

Nucleotide mutations

Substitutions

L

  • L:C82G
  • L:T86C
  • L:G88A
  • L:G93A
  • L:C95A
  • L:A109G
  • L:C117A
  • L:T121C
  • L:A124G
  • L:G130A
  • L:T131A
  • L:T139C
  • L:T151C
  • L:T154A
  • L:T157C
  • L:G172C
  • L:G175A
  • L:C199T

    • S

  • S:A61G
  • S:C64T
  • S:G67A
  • S:C70T
  • S:G73A
  • S:T79C
  • S:A85G
  • S:A92C
  • S:C97T
  • S:T106C
  • S:A109G
  • S:A118G
  • S:A121G
  • S:T127C
  • S:A130G
  • S:C154T
  • S:T155C
  • S:T163C
    • Deletions
    L:2395-2397, L:2405
    Insertions
    ins_L:2413:CGTT

    Amino acid mutations

    Substitutions

    NP

  • NP:M13L
  • NP:Y34H
  • NP:S39N
  • NP:S52G
  • NP:A100T
  • NP:T124A
  • NP:G125N
  • NP:V141I
  • NP:N144S
  • NP:A154S
  • NP:G185S
  • NP:N188S
  • NP:H195R
  • NP:V198I
  • NP:D199E
  • NP:V205I
  • NP:I220V
  • NP:I246V

    • RdRp

  • RdRp:D2E
  • RdRp:S6N
  • RdRp:L7I
  • RdRp:A14D
  • RdRp:S19T
  • RdRp:H56Y
  • RdRp:Y60N
  • RdRp:I61V
  • RdRp:S67V
  • RdRp:Y72F
  • RdRp:E75D
  • RdRp:R80K
  • RdRp:K91Q
  • RdRp:L94T
  • RdRp:A122T
  • RdRp:D135E
  • RdRp:I157M
  • RdRp:T163V
    • Deletions
    RdRp:777
    Insertions
    None