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_000P580.1

Display Name: China/LOC_000P580.1/1968
Moming, A.; Zhu, Q.; Bai, Y.; Jin, J.; Wu, Q.; Su, Z.; Tang, S.; Zhang, Y.; Shen, S.; Deng, F.

Submission details

Submission ID
OR047174.1.L/OR047154.1.M/OR047134.1.S
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-12-29 12:41:48 UTC
Date released
2024-12-29 12:46:35 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2024-12-29 12:41insdc_ingest_userOPEN
Data use terms URL
https://#TODO-MVP/open

Authors

Author affiliations
Wuhan Institute of Virology, Chinese Academy of Sciences

Alignment states and QC metrics L

Completeness L
100.00%
Length L
12371
Total ambiguous nucs L
0
Total deleted nucs L
16
Total frame shifts L
0
Total inserted nucs L
279
Total SNPs L
1575
Total unknown nucs L
0

Alignment states and QC metrics M

Completeness M
100.00%
Length M
5356
Total ambiguous nucs M
0
Total deleted nucs M
15
Total frame shifts M
0
Total inserted nucs M
5
Total SNPs M
582
Total unknown nucs M
0

Alignment states and QC metrics S

Completeness S
93.42%
Length S
1700
Total ambiguous nucs S
0
Total deleted nucs S
0
Total frame shifts S
0
Total inserted nucs S
138
Total SNPs S
203
Total unknown nucs S
0

Sample details

Earliest release date
2023-08-21
Collection country
China
Collection date
1968
Collection date (lower bound)
1968-01-01
Collection date (upper bound)
1968-12-31

Host

Host name scientific
Homo sapiens
Host taxon id
9606

INSDC

INSDC accession L
OR047174.1
INSDC accession M
OR047154.1
INSDC accession S
OR047134.1
NCBI release date
2023-08-21

Nucleotide mutations

Substitutions

L

  • L:A5G
  • L:A9C
  • L:A14G
  • L:A15G
  • L:T16G
  • L:C19T
  • L:C20G
  • L:G23T
  • L:A35G
  • L:G43C
  • L:T49C
  • L:C63G
  • L:C64T
  • L:T65C
  • L:T66C
  • L:G69A
  • L:G71T
  • L:G88A

    • M

  • M:C4T
  • M:T68C
  • M:G76A
  • M:A80G
  • M:C85T
  • M:A88G
  • M:C92T
  • M:A107G
  • M:A112G
  • M:A117G
  • M:C119T
  • M:C126T
  • M:A128G
  • M:G136A
  • M:A146G
  • M:G149A
  • M:C162A
  • M:A163G

    • S

  • S:C2G
  • S:T3G
  • S:A6C
  • S:A11G
  • S:T16A
  • S:C19A
  • S:C21A
  • S:A24C
  • S:G26T
  • S:G33C
  • S:C38T
  • S:T42A
  • S:T49C
  • S:A50T
  • S:G54A
  • S:A61G
  • S:C64T
  • S:G67A
    • Deletions
    L:11916, L:11917, L:11921, L:11966, L:11967, L:11981, L:11982, L:12044-12047, L:12069-12073, M:8-11, M:5289-5299
    Insertions
    ins_S:1530:T, ins_S:13:GAGGACACAGCCCCAGGAGTCAGTGGTA, ins_S:21:CAGAACTCTACACACGAGT, ins_S:30:GGCTCTA, ins_S:0:ATAGGACACCCTGGATCAGAAAGCAAGGACACGTAGACAGCAG, ins_S:36:ATTGCAAGGCCATTTCTGATCTAAT, ins_S:51:GCACAGTCCATG, ins_S:43:TTC, ins_M:5168:G, ins_M:0:GATA, ins_L:20:GTTAGTACTTGGATG, ins_L:12027:CTCT, ins_L:11924:GTCTG, ins_L:58:T, ins_L:12096:GTTT, ins_L:0:CGA, ins_L:11:AGCAGGG, ins_L:12076:TTA, ins_L:12053:TT, ins_L:12061:CACAACT, ins_L:12105:GTTTGCATTCCAA, ins_L:12083:GCTTT, ins_L:12064:GG, ins_L:11977:A, ins_L:12108:AAGTCATAAGTATATTCCCATTTCTATAAAAAGTATTGTAAAATTATTTAAAAA, ins_L:5:TCTGATCTCGG, ins_L:11961:GT, ins_L:11973:A, ins_L:12101:AGTTTCATTATTTCCAGCCTTCCGTACGCCACATGTCCCACGCCGCGACGCGCGGCGGGGATTCGGCGCTGGGCTCTTCCCTGTTCACTCGCCGTTACTGAGGGAATCCTGGTTAGTATGTGTGTATTTTTTATTTCAA

    Amino acid mutations

    Substitutions

    GPC

  • GPC:Y7C
  • GPC:I9V
  • GPC:C15Y
  • GPC:H24S
  • GPC:R28E
  • GPC:D33N
  • GPC:T34V
  • GPC:M35V
  • GPC:D40N
  • GPC:P42Q
  • GPC:S44P
  • GPC:P47L
  • GPC:A51T
  • GPC:S53P
  • GPC:I54V
  • GPC:P58S
  • GPC:P63S
  • GPC:L70P

    • NP

  • NP:R15K
  • NP:D44E
  • NP:D116E
  • NP:T124A
  • NP:G125N
  • NP:N150H
  • NP:H195R
  • NP:D199E
  • NP:I246V
  • NP:R270K
  • NP:S275N
  • NP:S301G
  • NP:V436I

    • RdRp

  • RdRp:S6N
  • RdRp:Y17H
  • RdRp:S19T
  • RdRp:Y60N
  • RdRp:R63H
  • RdRp:S67V
  • RdRp:R80K
  • RdRp:V82I
  • RdRp:I114V
  • RdRp:T163V
  • RdRp:E167G
  • RdRp:A168T
  • RdRp:M172V
  • RdRp:R174K
  • RdRp:S205P
  • RdRp:N206Y
  • RdRp:K275R
  • RdRp:I279V
    • Deletions
    None
    Insertions
    None