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_000NXU3.1

Display Name: United_Arab_Emirates/LOC_000NXU3.1/1979-12
Ashraf, S.; Love, H.; Burton, C.; Carmichael, S.; Filipe, A. D.; Roddy, S.; Smollett, K.; Summers, S.; Tong, L.; Richards, K. S.; Thomson, E. C.

Submission details

Submission ID
OL741591.1.L/OL741592.1.M/OL741593.1.S
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-12-23 19:47:50 UTC
Date released
2024-12-23 19:51:49 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2024-12-23 19:47insdc_ingest_userOPEN
Data use terms URL
https://#TODO-MVP/open

Authors

Author affiliations
University of Glasgow, MRC Centre for Virus Research

Alignment states and QC metrics L

Completeness L
99.87%
Length L
12144
Total ambiguous nucs L
0
Total deleted nucs L
7
Total frame shifts L
0
Total inserted nucs L
59
Total SNPs L
1654
Total unknown nucs L
0

Alignment states and QC metrics M

Completeness M
100.00%
Length M
5519
Total ambiguous nucs M
0
Total deleted nucs M
7
Total frame shifts M
0
Total inserted nucs M
160
Total SNPs M
708
Total unknown nucs M
0

Alignment states and QC metrics S

Completeness S
98.39%
Length S
1675
Total ambiguous nucs S
0
Total deleted nucs S
3
Total frame shifts S
0
Total inserted nucs S
33
Total SNPs S
220
Total unknown nucs S
0

Sample details

Earliest release date
2022-11-14
Collection country
United Arab Emirates
Collection date
1979-12
Collection date (lower bound)
1979-12-01
Collection date (upper bound)
1979-12-31
Isolate name
Dubai 616

Host

Host name scientific
Homo sapiens
Host taxon id
9606

INSDC

INSDC accession L
OL741591.1
INSDC accession M
OL741592.1
INSDC accession S
OL741593.1
NCBI release date
2022-11-14

Nucleotide mutations

Substitutions

L

  • L:G23T
  • L:A35G
  • L:A36T
  • L:A40G
  • L:G41A
  • L:G43C
  • L:A44G
  • L:T49C
  • L:C63G
  • L:C64T
  • L:T65C
  • L:T66C
  • L:G69A
  • L:G71C
  • L:G93A
  • L:T97C
  • L:A109G
  • L:A124G

    • M

  • M:C2G
  • M:T40C
  • M:G55A
  • M:T71C
  • M:C85T
  • M:T86C
  • M:A107G
  • M:G110A
  • M:A117G
  • M:C119T
  • M:T122C
  • M:C126T
  • M:A128G
  • M:G143A
  • M:A146G
  • M:G149A
  • M:T152C
  • M:T155C

    • S

  • S:T48C
  • S:G54A
  • S:A61G
  • S:C64T
  • S:G67A
  • S:G76T
  • S:G99A
  • S:A118G
  • S:C142T
  • S:T157C
  • S:C166T
  • S:C178A
  • S:T182C
  • S:G190A
  • S:G196A
  • S:T199C
  • S:A209G
  • S:C217T
    • Deletions
    L:11975-11979, L:12000, L:12028, M:4, M:5166-5171, S:1617, S:1650, S:1663
    Insertions
    ins_S:1672:AGAAGTTTCTTCAGCT, ins_S:1660:CCTGTTCATCCTGTT, ins_S:1612:C, ins_S:1577:A, ins_M:5164:GGGGGGGG, ins_M:5366:GTGGAGTCGCCTACCCCTGCCGCTGCCGCCGCCGCCGTCGCTGTCGTAGCCGCCGCTGCCGCTGCCGGAGAAAGAGCACGAGCGGGGAAGCCCCAGAGTGAAATCTAGCATCCTGCCGGCTGGTCTGC, ins_M:5361:GCCAGCCGGCGCCATTT, ins_M:0:ACACTGC, ins_L:12087:G, ins_L:12033:A, ins_L:11922:TC, ins_L:12101:AT, ins_L:12070:TCCT, ins_L:12068:C, ins_L:12095:AGT, ins_L:12079:CTT, ins_L:11990:TGCTA, ins_L:58:T, ins_L:11987:C, ins_L:12108:TTTCCAGGGTGTGGGGGG, ins_L:12055:ACAATTCCCTCAAGTGC

    Amino acid mutations

    Substitutions

    GPC

  • GPC:M6I
  • GPC:I9V
  • GPC:G22R
  • GPC:H24E
  • GPC:E26G
  • GPC:R28E
  • GPC:D33I
  • GPC:T36A
  • GPC:N41S
  • GPC:P42Q
  • GPC:S44P
  • GPC:P46L
  • GPC:S53P
  • GPC:I54V
  • GPC:T65A
  • GPC:G69R
  • GPC:L70F
  • GPC:Y77H

    • NP

  • NP:R15K
  • NP:S52G
  • 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:S19T
  • RdRp:Y60N
  • RdRp:R63H
  • RdRp:S67V
  • RdRp:R80K
  • RdRp:V82I
  • RdRp:I114V
  • RdRp:I157M
  • RdRp:T163A
  • RdRp:M172V
  • RdRp:R174K
  • RdRp:S205A
  • RdRp:N206Y
  • RdRp:I223M
  • RdRp:K275R
  • RdRp:I279V
  • RdRp:S409G
    • Deletions
    None
    Insertions
    None