marbling-doodle.yml

unique-id: marbling-doodle
phe-label: V-21JAN-01
who-label: Zeta
alternate-names:
- VUI202101/01
- Brazil 1
belongs-to-lineage:
- PANGO: P.2
description: This variant became widespread in Rio de Janeiro, Brazil and imported cases have been reported in a number of other countries including the UK
information-sources:
-
variants:
- amino-acid-change: L205V
  codon-change: TTA-GTA
  gene: ORF1ab
  one-based-reference-position: 10667
  predicted-effect: non-synonymous
  protein: nsp5
  protein-codon-position: 205
  reference-base: T
  type: SNP
  variant-base: G
- codon-change: ATC-ATT
  gene: ORF1ab
  one-based-reference-position: 11824
  predicted-effect: synonymous
  protein: nsp6
  protein-codon-position: 284
  reference-base: C
  type: SNP
  variant-base: T
- amino-acid-change: E484K
  codon-change: GAA-AAA
  gene: S
  one-based-reference-position: 23012
  predicted-effect: non-synonymous
  protein: surface glycoprotein
  protein-codon-position: 484
  reference-base: G
  type: SNP
  variant-base: A
- codon-change: GGA-GGG
  gene: ORF1ab
  one-based-reference-position: 12964
  predicted-effect: synonymous
  protein: nsp9
  protein-codon-position: 93
  reference-base: A
  type: SNP
  variant-base: G
- codon-change: TTC-TTT
  gene: ORF8
  one-based-reference-position: 28253
  predicted-effect: synonymous
  protein: ORF8 protein
  protein-codon-position: 120
  reference-base: C
  type: SNP
  variant-base: T
- amino-acid-change: A119S
  codon-change: GCT-TCT
  gene: N
  one-based-reference-position: 28628
  predicted-effect: non-synonymous
  protein: nucleocapsid phosphoprotein
  protein-codon-position: 119
  reference-base: G
  type: SNP
  variant-base: T
- amino-acid-change: M234I
  codon-change: ATG-ATT
  gene: N
  one-based-reference-position: 28975
  predicted-effect: non-synonymous
  protein: nucleocapsid phosphoprotein
  protein-codon-position: 234
  reference-base: G
  type: SNP
  variant-base: T
calling-definition:
  confirmed:
    mutations-required: 6
    indels-required: 0
    allowed-wildtype: 1
  low-qc:
    mutations-required: 0
    indels-required: 0
    allowed-wildtype: 0
acknowledgments:
curators:
  - Natalie Groves
  - Ulf Schaefer
  - Nick Loman