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The current mutation

ID: V4633
DNA: 775G>T
Protein: V259L
Position: 26167








COV2Var annotation categories







Summary information of mutation (775G>T)

Basic Information about Mutation.

  Gene Information   Gene ID   GU280_gp03
  Gene Name   ORF3a
  Gene Type   protein_coding
  Genome position   26167
  Reference genome   GenBank ID: NC_045512.2
  Mutation type   missense_variant
  DNA Level   DNA Mutation: 775G>T
  Ref Seq: G
  Mut Seq: T
  Protein Level   Protein 1-letter Mutation: V259L
  Protein 3-letter Mutation: Val259Leu

Overview of the genomic positions of Mutation.
Note: The annotated 12 genes were retrieved from GeneBank (Accession: NC_045512.2). "MP" represents genomic position of mutation.





Analyzing the distribution of mutation (775G>T) across geographic regions, temporal trends, and lineages

The count of genome sequences harboring this mutation and its distribution across global regions offer insights into regional variations.
Note: The distribution of mutation across 218 geographical regions. Color representation of genome sequence counts. The data is obtained from GISAID's metadata, specifically capturing the regional distribution of genomic sequences.



The dynamic count of genome sequences containing this mutation over time.
Note: Clicking the "Count" or "Cumulative Count" button toggles the view. Count represents the number of genome sequences per month. Cumulative count represents the accumulated total count up to the respective month. The data is obtained from GISAID's metadata, specifically capturing the collection date of genomic sequences.



For every time point represented in the graph above, identifying the top 3 lineages with the highest count of genome sequences carrying this mutation aids in pinpointing noteworthy lineages for further analysis.
Note: Users can filter the lineages by entering a "Year-Month" term in the search box. For example, entering 2020-01 will display lineages that appeared in January 2020. The data is obtained from GISAID's metadata, specifically capturing the collection date of genomic sequences.

Collection date Lineage Total lineage monthly counts Lineage-specific monthly counts Lineage-specific monthly frequency
2020-01 A 3 3 1.00e+0
2020-10 B.1 26 6 2.31e-1
2020-10 B.1.36.8 26 3 1.15e-1
2020-10 B.1.1 26 2 7.69e-2
2020-11 B.1.177 32 10 3.12e-1
2020-11 B.1 32 5 1.56e-1
2020-11 B.1.234 32 4 1.25e-1
2020-12 B.1.349 61 15 2.46e-1
2020-12 B.1.2 61 11 1.80e-1
2020-12 B.1 61 6 9.84e-2
2020-02 A 2 2 1.00e+0
2020-03 A 3 1 3.33e-1
2020-03 B.1.609 3 1 3.33e-1
2020-03 B.1.91 3 1 3.33e-1
2020-04 B.1.1 8 3 3.75e-1
2020-04 B.1.252 8 2 2.50e-1
2020-04 B.1 8 1 1.25e-1
2020-05 B.1 16 7 4.38e-1
2020-05 B.1.350 16 4 2.50e-1
2020-05 B.1.1 16 1 6.25e-2
2020-06 B.1 10 4 4.00e-1
2020-06 B.1.243 10 2 2.00e-1
2020-06 B.1.1 10 1 1.00e-1
2020-07 B.1.340 10 4 4.00e-1
2020-07 B.1 10 3 3.00e-1
2020-07 B.1.1 10 1 1.00e-1
2020-08 B.1.340 7 2 2.86e-1
2020-08 B.1 7 1 1.43e-1
2020-08 B.1.1 7 1 1.43e-1
2020-09 B.1.340 14 4 2.86e-1
2020-09 B.1 14 3 2.14e-1
2020-09 B.1.1.33 14 3 2.14e-1
2021-01 B.1.2 72 13 1.81e-1
2021-01 B.1.349 72 8 1.11e-1
2021-01 B.1.1.7 72 6 8.33e-2
2021-10 AY.4 735 228 3.10e-1
2021-10 AY.43 735 192 2.61e-1
2021-10 AY.122 735 53 7.21e-2
2021-11 AY.4 750 292 3.89e-1
2021-11 AY.43 750 139 1.85e-1
2021-11 AY.122 750 50 6.67e-2
2021-12 AY.43 496 115 2.32e-1
2021-12 AY.4 496 106 2.14e-1
2021-12 AY.122 496 67 1.35e-1
2021-02 A.27 75 13 1.73e-1
2021-02 B.1.1.7 75 10 1.33e-1
2021-02 B.1.1.337 75 8 1.07e-1
2021-03 B.1.1.7 116 28 2.41e-1
2021-03 B.1.427 116 16 1.38e-1
2021-03 A.27 116 12 1.03e-1
2021-04 B.1.1.7 157 52 3.31e-1
2021-04 B.1.621.1 157 30 1.91e-1
2021-04 B.1.526 157 21 1.34e-1
2021-05 B.1.621.1 517 373 7.21e-1
2021-05 B.1.1.7 517 82 1.59e-1
2021-05 B.1.526 517 15 2.90e-2
2021-06 B.1.621.1 703 555 7.89e-1
2021-06 AY.4 703 55 7.82e-2
2021-06 B.1.1.7 703 22 3.13e-2
2021-07 B.1.621.1 1107 539 4.87e-1
2021-07 BB.2 1107 245 2.21e-1
2021-07 AY.4 1107 125 1.13e-1
2021-08 AY.4 910 251 2.76e-1
2021-08 B.1.621.1 910 179 1.97e-1
2021-08 AY.3 910 116 1.27e-1
2021-09 AY.4 760 193 2.54e-1
2021-09 AY.122 760 105 1.38e-1
2021-09 AY.3 760 99 1.30e-1
2022-01 BA.1.1 115 26 2.26e-1
2022-01 AY.43 115 17 1.48e-1
2022-01 BA.1 115 16 1.39e-1
2022-10 BF.5 41 8 1.95e-1
2022-10 BA.4.1.9 41 5 1.22e-1
2022-10 BA.4.6 41 4 9.76e-2
2022-11 BF.5 59 12 2.03e-1
2022-11 BE.1.2.1 59 6 1.02e-1
2022-11 BQ.1.1 59 6 1.02e-1
2022-12 BQ.1.1 69 18 2.61e-1
2022-12 BF.5 69 13 1.88e-1
2022-12 CH.1.1.1 69 7 1.01e-1
2022-02 BA.2 136 52 3.82e-1
2022-02 BA.1.1 136 30 2.21e-1
2022-02 BA.2.3 136 20 1.47e-1
2022-03 BA.2 229 175 7.64e-1
2022-03 BA.2.3 229 23 1.00e-1
2022-03 BA.1.1 229 13 5.68e-2
2022-04 BA.2 148 100 6.76e-1
2022-04 BA.2.3 148 16 1.08e-1
2022-04 BA.2.12 148 12 8.11e-2
2022-05 BA.2 142 74 5.21e-1
2022-05 B.1.621.1 142 24 1.69e-1
2022-05 BA.2.12 142 18 1.27e-1
2022-06 BA.5.1.6 54 11 2.04e-1
2022-06 BA.2 54 8 1.48e-1
2022-06 BA.2.9.7 54 5 9.26e-2
2022-07 BA.5.1.6 92 44 4.78e-1
2022-07 BA.4.1.9 92 11 1.20e-1
2022-07 BF.5 92 5 5.43e-2
2022-08 BA.5.1.6 103 57 5.53e-1
2022-08 BA.4.1.9 103 13 1.26e-1
2022-08 BA.4.2 103 5 4.85e-2
2022-09 BA.4.1.9 71 21 2.96e-1
2022-09 BA.5.1.6 71 14 1.97e-1
2022-09 BA.4.6 71 11 1.55e-1
2023-01 BQ.1.1 43 9 2.09e-1
2023-01 BF.5 43 6 1.40e-1
2023-01 XBB.1.5 43 6 1.40e-1
2023-02 XBB.1.5 13 8 6.15e-1
2023-02 XBK 13 5 3.85e-1

The count of genome sequences and the frequency of this mutation in each lineage.
Note: Displaying mutation frequencies (>0.01) among 2,735 lineages. Mutation Count represents the count of sequences carrying this mutation. Users can filter the lineages by entering a search term in the search box. For example, entering "A.1" will display A.1 lineages. The data is obtained from GISAID's metadata, specifically capturing the lineage of genomic sequences. Mutation count: Count of sequences carrying this mutation.

Mutation ID Lineage Mutation frequency Mutation count Earliest lineage emergence Latest lineage emergence
V4633 A.27 4.71e-2 35 2020-11-27 2021-8-24
V4633 B.1.1.337 1.21e-2 4 2020-6-27 2021-3-20
V4633 B.1.252 1.37e-2 2 2020-3-27 2020-7-13
V4633 B.1.298 1.83e-2 9 2020-3-20 2021-5-1
V4633 B.1.340 3.85e-2 10 2020-4-6 2021-3-2
V4633 B.1.349 1.70e-2 24 2020-6-5 2021-8-21
V4633 B.1.350 1.70e-2 5 2020-3-13 2021-5-9
V4633 B.1.621.1 9.35e-1 1742 2021-4-9 2022-5-25
V4633 BA.4.1.9 9.34e-2 52 2021-12-22 2023-1-24
V4633 BA.5.1.6 3.40e-2 129 2022-3-8 2023-1-16
V4633 BB.2 9.20e-1 322 2021-4-20 2021-10-12
V4633 P.5 3.39e-2 2 2021-3-9 2021-7-26






Examining mutation (775G>T) found in abundant sequences of non-human animal hosts

Exploring mutation presence across 35 non-human animal hosts for cross-species transmission.
Note: We retained the mutation that appear in at least three non-human animal hosts' sequences. The data is obtained from GISAID's metadata, specifically capturing the host of genomic sequences.

Animal host Lineage Source region Collection date Accession ID
Odocoileus virginianus P.1 USA 2021-10-30 EPI_ISL_13610615
Odocoileus virginianus P.1 USA 2021-11-9 EPI_ISL_13610663
Odocoileus virginianus P.1 USA 2021-10-31 EPI_ISL_13610620
Odocoileus virginianus P.1 USA 2021-11-3 EPI_ISL_13610632




Association between mutation (775G>T) and patients of different ages, genders, and statuses

Note: The logistic regression model was employed to examine changes in patient data before and after the mutation. The logistic regression model was conducted using the glm function in R. The data is obtained from GISAID's metadata, specifically capturing the patient status, gender, and age of genomic sequences.

Analyzing the association between mutation and patient status.
Note: we categorized the data into different patient statuses (ambulatory, deceased, homebound, hospitalized, mild, and recovered) based on GISAID classifications. In the analysis exploring the association between mutation and patient status, the model included mutation, patient status, patient age, gender, sequence region of origin, and sequence collection time point. In the 'increase' direction of the mutation, it means that when this mutation occurs, it increases the corresponding effect proportion. In the 'decrease' direction of the mutation, it means that when this mutation occurs, it decreases the corresponding effect proportion. A p-value lower than 0.001 signifies a notable differentiation between the population with and without the mutation.

Attribute Effect Estimate SE Z-value P-value Direction
Patient status Ambulatory -8.25e-1 4.56e-1 -1.81e+0 7.04e-2 Decrease
Deceased 8.84e-1 1.60e+0 5.54e-1 5.80e-1 Increase
Homebound -7.48e-16 5.87e+4 -1.27e-20 1.00e+0 Decrease
Hospitalized 2.94e-1 3.90e-1 7.55e-1 4.51e-1 Increase
Mild 3.30e-1 1.15e+0 2.87e-1 7.74e-1 Increase
Recovered 5.87e-1 3.71e-1 1.58e+0 1.14e-1 Increase

Analyzing the association between mutation and patient status.
Note: we categorized the data into different patient age (0-17, 18-39, 40-64, 65-84, and 85+). In the analysis exploring the association between mutation and patient age, the model included mutation, patient age, gender, sequence region of origin, and sequence collection time point. In the 'increase' direction of the mutation, it means that when this mutation occurs, it increases the corresponding effect proportion. In the 'decrease' direction of the mutation, it means that when this mutation occurs, it decreases the corresponding effect proportion. A p-value lower than 0.001 signifies a notable differentiation between the population with and without the mutation.

Attribute Effect Estimate SE Z-value P-value Direction
Patient age, years 0-17 4.51e-1 1.14e-1 3.94e+0 8.12e-5 Increase
18-39 3.22e-1 6.13e-2 5.26e+0 1.44e-7 Increase
40-64 -1.43e-1 6.39e-2 -2.25e+0 2.46e-2 Decrease
65-84 -5.97e-1 1.06e-1 -5.61e+0 1.99e-8 Decrease
>=85 -6.96e-1 2.17e-1 -3.20e+0 1.38e-3 Decrease

Analyzing the association between mutation and patient status.
Note: we categorized the data into different patient gender (male and female). In the analysis exploring the association between mutation and patient gender, the model included mutation, patient gender, patient age, sequence region of origin, and sequence collection time point. In the 'increase' direction of the mutation, it means that when this mutation occurs, it increases the corresponding effect proportion. In the 'decrease' direction of the mutation, it means that when this mutation occurs, it decreases the corresponding effect proportion. A p-value lower than 0.001 signifies a notable differentiation between the population with and without the mutation.

Attribute Effect Estimate SE Z-value P-value Direction
Patient gender Male 2.98e-2 6.14e-2 4.85e-1 6.27e-1 Increase





Investigating natural selection at mutation (775G>T) site for genetic adaptation and diversity

Note: Investigating the occurrence of positive selection or negative selection at this mutation site reveals implications for genetic adaptation and diversity.

The MEME method within the HyPhy software was employed to analyze positive selection. MEME: episodic selection.
Note: List of sites found to be under episodic selection by MEME (p < 0.05). "Protein Start" corresponds to the protein's starting genomic position. "Protein End" corresponds to the protein's ending genomic position. The term 'site' represents a selection site within the protein.

Protein name Protein start Protein end Protein length Site P-value Lineage Method
ORF3a 25393 26220 275 259 0.00e+0 BA.2.10.1 MEME
ORF3a 25393 26220 275 259 0.00e+0 BA.4.1.1 MEME
ORF3a 25393 26220 275 259 0.00e+0 B.1.565 MEME
ORF3a 25393 26220 275 259 0.00e+0 B.1.351 MEME
ORF3a 25393 26220 275 259 0.00e+0 BA.1.15 MEME
ORF3a 25393 26220 275 259 3.00e-2 BA.1.20 MEME
ORF3a 25393 26220 275 259 0.00e+0 BA.2 MEME
ORF3a 25393 26220 275 259 2.00e-2 XAF MEME

The FEL method within the HyPhy software was employed to analyze both positive and negative selection. FEL: pervasive selection on samll datasets.
Note: List of sites found to be under pervasive selection by FEL (p < 0.05). A beta value greater than alpha signifies positive selection, while a beta value smaller than alpha signifies negative selection. "Protein Start" corresponds to the protein's starting genomic position. "Protein End" corresponds to the protein's ending genomic position. The term 'site' represents a selection site within the protein.

Protein name Protein start Protein end Protein length Site Alpha Beta P-value Lineage Method
ORF3a 25393 26220 275 259 106.41 0.00 5.00e-2 BA.5.1.8 FEL
ORF3a 25393 26220 275 259 34.20 0.00 4.00e-2 AY.15 FEL
ORF3a 25393 26220 275 259 50.38 0.00 4.00e-2 AY.7.2 FEL
ORF3a 25393 26220 275 259 39.24 0.00 4.00e-2 B.1.409 FEL
ORF3a 25393 26220 275 259 409.56 0.00 3.00e-2 AY.39.3 FEL
ORF3a 25393 26220 275 259 94.96 0.00 3.00e-2 Q.8 FEL
ORF3a 25393 26220 275 259 98.51 0.00 5.00e-2 AY.43.5 FEL

The FUBAR method within the HyPhy software was employed to analyze both positive and negative selection. FUBAR: pervasive selection on large datasets.
Note: List of sites found to be under pervasive selection by FUBAR (prob > 0.95). A prob[alpha < beta] value exceeding 0.95 indicates positive selection, while a prob[alpha > beta] value exceeding 0.95 indicates negative selection. "Protein Start" corresponds to the protein's starting genomic position. "Protein End" corresponds to the protein's ending genomic position. The term 'site' represents a selection site within the protein.

Protein name Protein start Protein end Protein length Site Prob[alpha>beta] Prob[alpha<beta] Lineage Method




Alterations in protein physicochemical properties induced by mutation (775G>T)

Understanding the alterations in protein physicochemical properties can reveal the evolutionary processes and adaptive changes of viruses
Note: ProtParam software was used for the analysis of physicochemical properties. Significant change threshold: A change exceeding 10% compared to the reference is considered a significant change. "GRAVY" is an abbreviation for "grand average of hydropathicity".

Group Protein name Molecular weight Theoretical PI Extinction coefficients Aliphatic index GRAVY
Mutation ORF3a 31136.96 5.55 58330 103.78 0.273
Reference ORF3a 31122.94 5.55 58330 103.42 0.275




Alterations in protein stability induced by mutation (775G>T)

The impact of mutations on protein stability directly or indirectly affects the biological characteristics, adaptability, and transmission capacity of the virus
Note: iMutant 2.0 was utilized to analyze the effects of mutations on protein stability. pH 7 and a temperature of 25°C are employed to replicate the in vitro environment. pH 7.4 and a temperature of 37°C are utilized to simulate the in vivo environment.

Mutation Protein name Mutation type Position ΔDDG Stability pH Temperature Condition
V259L ORF3a Point 259 -0.75 Decrease 7 25 Environment
V259L ORF3a Point 259 -0.72 Decrease 7.4 37 Internal




Impact on protein function induced by mutation (775G>T)

The impact of mutations on protein function
Note: The MutPred2 software was used to predict the pathogenicity of a mutation and gives the molecular mechanism of pathogenicity. A score above 0.5 indicates an increased likelihood of pathogenicity. "Pr" is the abbreviation for "proportion. P" is the abbreviation for "p-value.

Mutation Protein name Mutation type Score Molecular mechanisms
V259L ORF3a Point 0.03 Altered MoRF (Pr = 0.30 | P = 0.03)
Altered PPI_residue (Pr = 0.25 | P = 0.08)
Altered PPI_hotspot (Pr = 0.24 | P = 0.03)
Gain of Phosphorylation at Y264 (Pr = 0.19 | P = 0.09)
Loss of Nickel_binding at N257 (Pr = 0.11 | P = 0.09)
Altered Cytoplasmic_loop (Pr = 0.11 | P = 0.03)
Loss of Sulfation at Y264 (Pr = 0.05 | P = 8.4e-03)




Exploring mutation (775G>T) distribution within intrinsically disordered protein regions

Intrinsically Disordered Proteins (IDPs) which refers to protein regions that have no unique 3D structure. In viral proteins, mutations in the disordered regions s are critical for immune evasion and antibody escape, suggesting potential additional implications for vaccines and monoclonal therapeutic strategies.
Note: The iupred3 software was utilized for analyzing IDPs. A score greater than 0.5 is considered indicative of an IDP. In the plot, "POS" represents the position of the mutation.





Alterations in enzyme cleavage sites induced by mutation (775G>T)

Exploring the impact of mutations on the cleavage sites of 28 enzymes.
Note: The PeptideCutter software was used for detecting enzymes cleavage sites. The increased enzymes cleavage sites refer to the cleavage sites in the mutated protein that are added compared to the reference protein. Conversely, the decreased enzymes cleavage sites indicate the cleavage sites in the mutated protein that are reduced compared to the reference protein.

Mutation Protein name Genome position Enzyme name Increased cleavage sites Decreased cleavage sites
V259L ORF3a 26167 Pepsin (pH1.3) VVNPLMEPIY (pos: 258)
 NA
V259L ORF3a 26167 Chymotrypsin-low specificity VNPLMEPIYD (pos: 259)
 NA
V259L ORF3a 26167 Pepsin (pH>2) VVNPLMEPIY (pos: 258)
 NA




Impact of spike protein mutation (775G>T) on antigenicity and immunogenicity

Investigating the impact of mutations on antigenicity and immunogenicity carries important implications for vaccine design and our understanding of immune responses.
Note: An absolute change greater than 0.0102 (three times the median across sites) in antigenicity score is considered significant. An absolute changegreater than 0.2754 (three times the median across sites) in immunogenicity score is considered significant. The VaxiJen tool was utilized for antigenicity analysis. The IEDB tool was used for immunogenicity analysis. Antigens with a prediction score of more than 0.4 for this tool are considered candidate antigens. MHC I immunogenicity score >0, indicating a higher probability to stimulate an immune response.

Group Protein name Protein region Antigenicity score Immunogenicity score




Impact of mutation (775G>T) on viral transmissibility by the affinity between RBD and ACE2 receptor

Unraveling the impact of mutations on the interaction between the receptor binding domain (RBD) and ACE2 receptor using deep mutational scanning (DMS) experimental data to gain insights into their effects on viral transmissibility.
Note: The ΔBinding affinity represents the disparity between the binding affinity of a mutation and the reference binding affinity. A positive Δbinding affinity value (Δlog10(KD,app) > 0) signifies an increased affinity between RBD and ACE2 receptor due to the mutation. Conversely, a negative value (Δlog10(KD,app) < 0) indicates a reduced affinity between RBD and ACE2 receptor caused by the mutation. A p-value smaller than 0.05 indicates significance. "Ave mut bind" represents the average binding affinity of this mutation. "Ave ref bind" refers to the average binding affinity at a site without any mutation (reference binding affinity).

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Mutation Protein name Protein region Mutation Position Ave mut bind Ave ref bind ΔBinding affinity P-value Image


The interface between the receptor binding domain (RBD) and ACE2 receptor is depicted in the crystal structure 6JM0.
Note: The structure 6M0J encompasses the RBD range of 333 to 526. The binding sites (403-406, 408, 417, 439, 445-447, 449, 453, 455-456, 473-478, 484-498, and 500-506) on the RBD that interface with ACE2 are indicated in magenta. The binding sites on the RBD that have been identified through the interface footprints experiment. The ACE2 binding sites within the interface are shown in cyan, representing residues within 5Å proximity to the RBD binding sites. The mutation within the RBD range of 333 to 526 is depicted in red.

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        Show interface residues:





Impact of mutation (775G>T) on immune escape by the affinity between RBD and antibody/serum

By utilizing experimental data from deep mutational scanning (DMS), we can uncover how mutations affect the interaction between the receptor binding domain (RBD) and antibodies/serum. This approach provides valuable insights into strategies for evading the host immune response.
Note: We considered a mutation to mediate strong escape if the escape score exceeded 0.1 (10% of the maximum score of 1). A total of 1,504 antibodies/serum data were collected for this analysis. "Condition name" refers to the name of the antibodies/serum. "Mut escape score" represents the escape score of the mutation in that specific condition. "Avg mut escape score" indicates the average escape score of the mutation site in that condition, considering the occurrence of this mutation and other mutations. Class 1 antibodies bind to an epitope only in the RBD “up” conformation, and are the most abundant. Class 2 antibodies bind to the RBD both in “up” and “down” conformations. Class 3 and class 4 antibodies both bind outside the ACE2 binding site. Class 3 antibodies bind the RBD in both the open and closed conformation, while class 4 antibodies bind only in the open conformation.

Mutation Condition name Condition type Condition subtype Condition year Mut escape score Avg mut escape score




Investigating the co-mutation patterns of mutation (775G>T) across 2,735 viral lineages

Investigating the co-mutation patterns of SARS-CoV-2 across 2,735 viral lineages to unravel the cooperative effects of different mutations. In biological research, correlation analysis of mutation sites helps us understand whether there is a close relationship or interaction between certain mutations.
Note: The Spearman correlation coefficient is used to calculate the correlation between two mutations within each Pango lineage. Holm–Bonferroni method was used for multiple test adjustment. We retained mutation pairs with correlation values greater than 0.6 or less than -0.6 and Holm–Bonferroni corrected p-values less than 0.05.

Associated mutation ID DNA mutation Mutation type Protein name Protein mutation correlation coefficient Lineage
V1024 3508C>T missense_variant ORF1ab_pp1a R1170C 7.74e-1 B.1.147
V1110 3893C>T missense_variant ORF1ab_pp1a A1298V 6.66e-1 B.1.147
V4770 311C>T missense_variant M A104V 6.66e-1 B.1.147
V7382 11559C>T synonymous_variant ORF1ab_pp1a I3853I 6.66e-1 B.1.147
V7760 14424C>T synonymous_variant ORF1ab_pp1ab N4808N 8.66e-1 B.1.147
V8145 17415G>T synonymous_variant ORF1ab_pp1ab T5805T 6.66e-1 B.1.147
V2234 11369G>T missense_variant ORF1ab_pp1a C3790F 7.42e-1 AY.122
V2723 15502G>T missense_variant ORF1ab_pp1ab V5168L 6.53e-1 AY.122
V4627 767_769delTTA disruptive_inframe_deletion ORF3a V256_N257delinsD 8.25e-1 AY.122
V5114 112C>T missense_variant ORF8 P38S 6.80e-1 AY.122
V9697 684C>T synonymous_variant N N228N 6.16e-1 AY.122
V2870 16840C>T missense_variant ORF1ab_pp1ab H5614Y 6.11e-1 A
V6281 2901T>A synonymous_variant ORF1ab_pp1a A967A 6.20e-1 AY.102
V7910 15639A>G synonymous_variant ORF1ab_pp1ab K5213K 6.47e-1 AY.102
V1895 8933C>T missense_variant ORF1ab_pp1a T2978I 1.00e+0 AY.106
V9795 1144T>C synonymous_variant N L382L 1.00e+0 AY.106
V2655 14782A>G missense_variant ORF1ab_pp1ab I4928V 7.07e-1 AY.109
V7901 15546C>T synonymous_variant ORF1ab_pp1ab N5182N 7.07e-1 AY.109
V221 328C>T missense_variant ORF1ab_pp1a H110Y 7.07e-1 AY.112.2
V3873 1332G>T missense_variant S K444N 7.07e-1 AY.112.2
V9221 606A>G synonymous_variant ORF3a V202V 1.00e+0 AY.112.2
V9334 336C>T synonymous_variant M F112F 7.07e-1 AY.112.2
V1378 5798A>G missense_variant ORF1ab_pp1a D1933G 7.33e-1 AY.112
V4625 766G>A missense_variant ORF3a V256I 8.04e-1 AY.118
V5198 308C>T missense_variant ORF8 S103L 8.51e-1 AY.118
V6663 5805C>T synonymous_variant ORF1ab_pp1a I1935I 8.46e-1 AY.118
V706 2203G>A missense_variant ORF1ab_pp1a A735T 6.17e-1 AY.118
V8989 2796C>A synonymous_variant S G932G 8.05e-1 AY.118
V5006 3G>A start_lost ORF7b M1? 1.00e+0 AY.121.1
V5007 5T>A missense_variant ORF7b I2N 1.00e+0 AY.121.1
V825 2780C>T missense_variant ORF1ab_pp1a P927L 1.00e+0 AY.121.1
V4639 780G>T missense_variant ORF3a M260I 8.16e-1 AY.122.1
V1748 7975C>T missense_variant ORF1ab_pp1a H2659Y 8.16e-1 AY.122.4
V260 421_429delAAGTCATTT conservative_inframe_deletion ORF1ab_pp1a K141_F143del 6.32e-1 AY.122.4
V6507 4662C>T synonymous_variant ORF1ab_pp1a D1554D 8.16e-1 AY.122.4
V9078 3444C>T synonymous_variant S F1148F 1.00e+0 AY.122.4
V3080 18244C>T missense_variant ORF1ab_pp1ab L6082F 1.00e+0 AY.122.5
V7397 11676C>T synonymous_variant ORF1ab_pp1a V3892V 8.24e-1 AY.14
V1378 5798A>G missense_variant ORF1ab_pp1a D1933G 8.94e-1 AY.23.1
V2591 14132C>T missense_variant ORF1ab_pp1ab T4711I 8.94e-1 AY.23.1
V4513 418C>T missense_variant ORF3a L140F 8.94e-1 AY.23.1
V6690 6045C>T synonymous_variant ORF1ab_pp1a S2015S 8.94e-1 AY.23.1
V8315 18613C>T synonymous_variant ORF1ab_pp1ab L6205L 8.94e-1 AY.23.1
V8592 20991G>T synonymous_variant ORF1ab_pp1ab A6997A 8.94e-1 AY.23.1
V926 3130G>T missense_variant ORF1ab_pp1a D1044Y 8.94e-1 AY.23.1
V5563 922G>T missense_variant N A308S 6.71e-1 AY.29.1
V1637 7122G>A missense_variant ORF1ab_pp1a M2374I 1.00e+0 AY.32
V250 409G>A missense_variant ORF1ab_pp1a G137S 1.00e+0 AY.32
V3775 755G>A missense_variant S G252D 1.00e+0 AY.35
V8432 19602T>C synonymous_variant ORF1ab_pp1ab N6534N 1.00e+0 AY.35
V1277 5036C>T missense_variant ORF1ab_pp1a A1679V 1.00e+0 AY.37
V5639 1193C>T missense_variant N A398V 7.07e-1 AY.37
V9729 846C>T synonymous_variant N T282T 1.00e+0 AY.37
V1134 4134G>T missense_variant ORF1ab_pp1a M1378I 1.00e+0 AY.38
V3954 1718C>T missense_variant S T573I 8.66e-1 AY.38
V6410 3924C>T synonymous_variant ORF1ab_pp1a G1308G 1.00e+0 AY.38
V2319 12053C>T missense_variant ORF1ab_pp1a S4018F 6.66e-1 AY.39.1
V1219 4700C>T missense_variant ORF1ab_pp1a T1567I 1.00e+0 AY.39.2
V6212 2403C>T synonymous_variant ORF1ab_pp1a A801A 6.67e-1 AY.42
V7973 16113G>A synonymous_variant ORF1ab_pp1ab P5371P 6.40e-1 AY.42
V8719 657T>C synonymous_variant S G219G 8.16e-1 AY.42
V8689 417A>G synonymous_variant S P139P 7.07e-1 AY.45
V6804 6897C>T synonymous_variant ORF1ab_pp1a D2299D 7.07e-1 AY.46.5
V1378 5798A>G missense_variant ORF1ab_pp1a D1933G 8.37e-1 AY.46.6
V8315 18613C>T synonymous_variant ORF1ab_pp1ab L6205L 6.21e-1 AY.46.6
V165 211A>G missense_variant ORF1ab_pp1a I71V 8.16e-1 AY.4.6
V2000 9926C>T missense_variant ORF1ab_pp1a S3309F 8.16e-1 AY.4.6
V4892 113G>T missense_variant ORF7a G38V 8.16e-1 AY.4.6
V6817 7002C>T synonymous_variant ORF1ab_pp1a F2334F 6.67e-1 AY.4.6
V7272 10603C>T synonymous_variant ORF1ab_pp1a L3535L 8.16e-1 AY.4.6
V7293 10785C>T synonymous_variant ORF1ab_pp1a V3595V 8.16e-1 AY.4.6
V1443 6139G>T missense_variant ORF1ab_pp1a V2047F 7.44e-1 AY.4.9
V4466 298G>T missense_variant ORF3a G100C 6.25e-1 AY.4.9
V8172 17586C>T synonymous_variant ORF1ab_pp1ab G5862G 6.25e-1 AY.4.9
V1025 3509G>A missense_variant ORF1ab_pp1a R1170H 7.07e-1 AY.5.4
V1428 6089C>T missense_variant ORF1ab_pp1a S2030L 7.08e-1 AY.59
V726 2285A>G missense_variant ORF1ab_pp1a D762G 8.78e-1 AY.59
V9559 363C>T synonymous_variant ORF8 I121I 8.30e-1 AY.59
V2865 16794G>T missense_variant ORF1ab_pp1ab M5598I 7.07e-1 AY.60
V4610 719C>T missense_variant ORF3a P240L 1.00e+0 AY.65
V5795 *4373G>T downstream_gene_variant S None 1.00e+0 AY.65
V8682 366C>T synonymous_variant S N122N 8.03e-1 AY.70
V9575 87T>C synonymous_variant N N29N 8.51e-1 AY.77
V6068 1473G>A synonymous_variant ORF1ab_pp1a V491V 1.00e+0 AY.79
V6948 8079C>T synonymous_variant ORF1ab_pp1a D2693D 9.68e-1 AY.84
V9358 429G>T synonymous_variant M V143V 9.12e-1 AY.84
V8105 17109C>T synonymous_variant ORF1ab_pp1ab A5703A 6.66e-1 AY.86
V454 1208C>T missense_variant ORF1ab_pp1a T403I 7.37e-1 AY.8
V5675 -5G>T upstream_gene_variant ORF10 None 8.16e-1 AY.8
V1181 4519C>T missense_variant ORF1ab_pp1a L1507F 1.00e+0 AY.91
V4215 3430G>C missense_variant S E1144Q 1.00e+0 AY.91
V5785 *4363G>A downstream_gene_variant S None 7.07e-1 AY.91
V7107 9333C>T synonymous_variant ORF1ab_pp1a Y3111Y 1.00e+0 AY.91
V1533 6439A>G missense_variant ORF1ab_pp1a N2147D 1.00e+0 AY.92
V1885 8855C>T missense_variant ORF1ab_pp1a T2952I 1.00e+0 AY.92
V2194 11186A>G missense_variant ORF1ab_pp1a Q3729R 1.00e+0 AY.92
V2925 17227C>T missense_variant ORF1ab_pp1ab P5743S 7.07e-1 AY.92
V3909 1450G>A missense_variant S E484K 1.00e+0 AY.92
V3927 1501A>T missense_variant S N501Y 7.07e-1 AY.92
V4022 2042C>A missense_variant S P681H 7.07e-1 AY.92
V4625 766G>A missense_variant ORF3a V256I 1.00e+0 AY.92
V4630 769A>T missense_variant ORF3a N257Y 1.00e+0 AY.92
V5080 32C>A missense_variant ORF8 T11K 1.00e+0 AY.92
V5114 112C>T missense_variant ORF8 P38S 7.07e-1 AY.92
V5787 *4364T>C downstream_gene_variant S None 1.00e+0 AY.92
V6656 5772C>T synonymous_variant ORF1ab_pp1a S1924S 1.00e+0 AY.92
V8466 19884C>T synonymous_variant ORF1ab_pp1ab F6628F 7.07e-1 AY.92
V7909 15631C>T synonymous_variant ORF1ab_pp1ab L5211L 8.94e-1 AY.94
V1671 7502T>C missense_variant ORF1ab_pp1a I2501T 7.07e-1 B.1.111
V5019 39_41delTTT disruptive_inframe_deletion ORF7b F13del 7.07e-1 B.1.111
V6940 8028C>T synonymous_variant ORF1ab_pp1a T2676T 7.07e-1 B.1.111
V8355 18903A>G synonymous_variant ORF1ab_pp1ab K6301K 7.07e-1 B.1.111
V2095 10717A>G missense_variant ORF1ab_pp1a K3573E 1.00e+0 B.1.1.1
V2169 11031T>G missense_variant ORF1ab_pp1a F3677L 1.00e+0 B.1.1.1
V3987 1919C>T missense_variant S S640F 1.00e+0 B.1.1.1
V4629 770delA frameshift_variant ORF3a N257fs 1.00e+0 B.1.1.1
V617 1829C>T missense_variant ORF1ab_pp1a S610L 7.07e-1 B.1.1.1
V834 2804A>G missense_variant ORF1ab_pp1a D935G 1.00e+0 B.1.1.1
V2451 13193C>T missense_variant ORF1ab_pp1a S4398L 7.07e-1 B.1.1.216
V3879 1337G>T missense_variant S G446V 7.07e-1 B.1.1.216
V1354 5621C>T missense_variant ORF1ab_pp1a T1874I 6.71e-1 B.1.1.222
V1327 5435C>T missense_variant ORF1ab_pp1a A1812V 1.00e+0 B.1.1.269
V1334 5465C>T missense_variant ORF1ab_pp1a T1822I 1.00e+0 B.1.1.269
V2613 14321C>T missense_variant ORF1ab_pp1ab A4774V 1.00e+0 B.1.1.269
V300 575G>A missense_variant ORF1ab_pp1a G192D 1.00e+0 B.1.1.269
V3079 18234G>T missense_variant ORF1ab_pp1ab M6078I 1.00e+0 B.1.1.269
V6700 6087G>A synonymous_variant ORF1ab_pp1a K2029K 1.00e+0 B.1.1.269
V8457 19791A>G synonymous_variant ORF1ab_pp1ab E6597E 8.16e-1 B.1.1.269
V8902 2073C>T synonymous_variant S S691S 7.06e-1 B.1.1.269
V4720 8A>G missense_variant M D3G 1.00e+0 B.1.126
V5759 *4349C>T downstream_gene_variant S None 1.00e+0 B.1.126
V1509 6362C>T missense_variant ORF1ab_pp1a T2121I 7.50e-1 B.1.1.33
V4696 -37_-35delTAT upstream_gene_variant M None 7.50e-1 B.1.1.33
V5750 *4344_*4345delTT downstream_gene_variant S None 7.50e-1 B.1.1.33
V8863 1851C>T synonymous_variant S C617C 6.70e-1 B.1.1.33
V3195 19000C>T missense_variant ORF1ab_pp1ab L6334F 7.07e-1 B.1.1.420
V4396 157C>T missense_variant ORF3a L53F 1.00e+0 B.1.177.12
V8468 19914C>T synonymous_variant ORF1ab_pp1ab V6638V 1.00e+0 B.1.177.12
V8260 18222C>T synonymous_variant ORF1ab_pp1ab L6074L 1.00e+0 B.1.177.82
V2103 10740C>A missense_variant ORF1ab_pp1a H3580Q 7.07e-1 B.1.221
V4486 329C>T missense_variant ORF3a A110V 7.06e-1 B.1.236
V5143 184G>C missense_variant ORF8 V62L 1.00e+0 B.1.236
V5643 1201G>T missense_variant N D401Y 1.00e+0 B.1.236
V5757 *4348C>T downstream_gene_variant S None 1.00e+0 B.1.236
V4274 3728G>T missense_variant S C1243F 1.00e+0 B.1.320
V4305 15G>T missense_variant ORF3a M5I 1.00e+0 B.1.320
V3242 19420G>T missense_variant ORF1ab_pp1ab V6474L 6.47e-1 B.1.349
V5469 614C>T missense_variant N T205I 6.35e-1 B.1.349
V590 1727A>G missense_variant ORF1ab_pp1a Y576C 8.50e-1 B.1.349
V6507 4662C>T synonymous_variant ORF1ab_pp1a D1554D 6.47e-1 B.1.349
V832 2801G>A missense_variant ORF1ab_pp1a G934D 9.79e-1 B.1.349
V9696 675C>T synonymous_variant N D225D 6.09e-1 B.1.349
V4734 98G>T missense_variant M C33F 1.00e+0 B.1.36.1
V2325 12145A>G missense_variant ORF1ab_pp1a I4049V 6.98e-1 B.1.36.29
V6064 1419C>T synonymous_variant ORF1ab_pp1a I473I 6.03e-1 B.1.36.29
V6921 7875C>T synonymous_variant ORF1ab_pp1a S2625S 6.52e-1 B.1.36.29
V7304 10908C>T synonymous_variant ORF1ab_pp1a L3636L 6.52e-1 B.1.36.29
V7380 11547C>A synonymous_variant ORF1ab_pp1a G3849G 9.25e-1 B.1.36.29
V8927 2334C>T synonymous_variant S T778T 9.25e-1 B.1.36.29
V9741 894C>T synonymous_variant N Y298Y 7.15e-1 B.1.36.29
V5263 27G>T missense_variant N Q9H 1.00e+0 B.1.36.31
V2817 16477G>T missense_variant ORF1ab_pp1ab V5493F 8.16e-1 B.1.36.8
V9073 3420T>C synonymous_variant S P1140P 8.16e-1 B.1.36.8
V4678 145G>T missense_variant E V49L 1.00e+0 B.1.398
V5481 626G>T missense_variant N R209I 1.00e+0 B.1.398
V5871 213C>T synonymous_variant ORF1ab_pp1a I71I 7.06e-1 B.1.398
V9282 220C>T synonymous_variant E L74L 1.00e+0 B.1.398
V8265 18291C>T synonymous_variant ORF1ab_pp1ab D6097D 6.58e-1 B.1.427
V256 413C>T missense_variant ORF1ab_pp1a A138V 8.16e-1 B.1.438.1
V7155 9702C>T synonymous_variant ORF1ab_pp1a L3234L 7.07e-1 B.1.466.2
V1438 6115C>T missense_variant ORF1ab_pp1a L2039F 1.00e+0 B.1.470
V2907 17069C>T missense_variant ORF1ab_pp1ab T5690M 1.00e+0 B.1.470
V6521 4743G>T synonymous_variant ORF1ab_pp1a T1581T 1.00e+0 B.1.470
V862 2911C>T missense_variant ORF1ab_pp1a P971S 7.07e-1 B.1.577
V4076 2372C>T missense_variant S T791I 6.32e-1 B.1.617.1
V1533 6439A>G missense_variant ORF1ab_pp1a N2147D 6.66e-1 B.1.621
V1885 8855C>T missense_variant ORF1ab_pp1a T2952I 6.38e-1 B.1.621
V3071 18185G>T missense_variant ORF1ab_pp1ab S6062I 7.58e-1 B.1.621
V5787 *4364T>C downstream_gene_variant S None 6.68e-1 B.1.621
V627 1876C>T missense_variant ORF1ab_pp1a P626S 7.58e-1 B.1.621
V8632 96C>T synonymous_variant S F32F 6.66e-1 B.1.621
V4251 3621G>T missense_variant S E1207D 1.00e+0 B.1.623
V8595 21000T>C synonymous_variant ORF1ab_pp1ab S7000S 6.67e-1 BA.1.20
V2342 12269C>T missense_variant ORF1ab_pp1a T4090I 6.62e-1 BA.2.12
V746 2353A>G missense_variant ORF1ab_pp1a I785V 6.72e-1 BA.2.12
V8219 17988C>T synonymous_variant ORF1ab_pp1ab N5996N 6.32e-1 BA.2.12
V4978 295C>T missense_variant ORF7a P99S 1.00e+0 BA.2.22
V2616 14357C>T missense_variant ORF1ab_pp1ab T4786M 6.32e-1 BA.2.3.2
V3352 20143T>C missense_variant ORF1ab_pp1ab F6715L 8.16e-1 BA.2.3.2
V5119 133T>C missense_variant ORF8 W45R 8.16e-1 BA.2.3.2
V6994 8505C>T synonymous_variant ORF1ab_pp1a D2835D 6.32e-1 BA.2.3.2
V1733 7874C>T missense_variant ORF1ab_pp1a S2625F 1.00e+0 BA.2.38
V5756 *4346C>T downstream_gene_variant S None 1.00e+0 BA.2.38
V3870 1331A>G missense_variant S K444R 9.38e-1 BA.4.1.9
V9077 3441A>G synonymous_variant S S1147S 9.79e-1 BA.4.1.9
V3591 224G>C missense_variant S G75A 6.46e-1 BA.4.2
V9214 507T>C synonymous_variant ORF3a I169I 7.07e-1 BA.5.1.10
V7258 10482C>T synonymous_variant ORF1ab_pp1a N3494N 1.00e+0 BA.5.1.9
V8705 558C>T synonymous_variant S F186F 7.07e-1 BA.5.1.9
V5191 285G>T missense_variant ORF8 L95F 7.07e-1 BA.5.2.12
V4452 277C>T missense_variant ORF3a H93Y 7.07e-1 BA.5.2.18
V6951 8103G>A synonymous_variant ORF1ab_pp1a A2701A 7.07e-1 BA.5.2.18
V7260 10500C>T synonymous_variant ORF1ab_pp1a Y3500Y 7.07e-1 BA.5.2.18
V8677 336G>A synonymous_variant S S112S 7.07e-1 BA.5.2.18
V1605 6836C>T missense_variant ORF1ab_pp1a A2279V 7.07e-1 BA.5.2.28
V8859 1818C>T synonymous_variant S N606N 1.00e+0 BA.5.2.31
V4990 329T>C missense_variant ORF7a I110T 1.00e+0 BA.5.2.8
V178 245_250delGTCATG disruptive_inframe_deletion ORF1ab_pp1a G82_H83del 7.07e-1 BA.5.3.1
V7545 12825T>C synonymous_variant ORF1ab_pp1a D4275D 1.00e+0 BA.5.3.1
V9110 3621G>A synonymous_variant S E1207E 7.07e-1 BA.5.3.1
V3080 18244C>T missense_variant ORF1ab_pp1ab L6082F 6.40e-1 BE.1.2.1
V7413 11757T>C synonymous_variant ORF1ab_pp1a L3919L 1.00e+0 BE.1.2.1
V3862 1258G>A missense_variant S D420N 7.07e-1 BE.1.2
V4884 101C>T missense_variant ORF7a P34L 1.00e+0 BE.1.2
V7062 8958C>T synonymous_variant ORF1ab_pp1a H2986H 1.00e+0 BE.1.2
V1906 9035G>A missense_variant ORF1ab_pp1a R3012K 1.00e+0 BF.16
V7533 12709C>T synonymous_variant ORF1ab_pp1a L4237L 1.00e+0 BF.16
V1185 4550C>T missense_variant ORF1ab_pp1a S1517F 1.00e+0 BF.9
V5412 502C>T missense_variant N P168S 1.00e+0 BN.3.1
V9406 93C>T synonymous_variant ORF6 Y31Y 1.00e+0 BN.3.1
V1994 9877C>A missense_variant ORF1ab_pp1a L3293I 7.07e-1 BQ.1.1.31
V3210 19134G>T missense_variant ORF1ab_pp1ab E6378D 1.00e+0 BQ.1.1.31
V6042 1254C>T synonymous_variant ORF1ab_pp1a N418N 1.00e+0 BQ.1.1.31
V7419 11803C>T synonymous_variant ORF1ab_pp1a L3935L 7.07e-1 BQ.1.1.31
V9372 492G>T synonymous_variant M L164L 7.07e-1 BQ.1.1.31
V828 2784T>A missense_variant ORF1ab_pp1a D928E 8.16e-1 BQ.1.1.32
V5325 109T>C missense_variant N S37P 7.07e-1 BQ.1.13
V3210 19134G>T missense_variant ORF1ab_pp1ab E6378D 8.66e-1 BQ.1.3
V6461 4317C>T synonymous_variant ORF1ab_pp1a N1439N 6.71e-1 BQ.1.3
V9372 492G>T synonymous_variant M L164L 8.66e-1 BQ.1.3
V6180 2205C>T synonymous_variant ORF1ab_pp1a A735A 1.00e+0 BQ.1.8.2
V1265 4941G>T missense_variant ORF1ab_pp1a M1647I 1.00e+0 C.36
V4395 154C>T missense_variant ORF3a L52F 1.00e+0 C.36
V5964 687C>T synonymous_variant ORF1ab_pp1a Y229Y 1.00e+0 C.36
V6395 3819C>T synonymous_variant ORF1ab_pp1a D1273D 1.00e+0 C.36
V1198 4613C>T missense_variant ORF1ab_pp1a T1538I 1.00e+0 CL.1
V8462 19851C>T synonymous_variant ORF1ab_pp1ab V6617V 1.00e+0 CQ.2
V2647 14742G>T missense_variant ORF1ab_pp1ab E4914D 6.32e-1 P.1.14
V1134 4134G>T missense_variant ORF1ab_pp1a M1378I 1.00e+0 P.1.6
V5158 197G>T missense_variant ORF8 G66V 1.00e+0 P.1.7
V3477 20969C>T missense_variant ORF1ab_pp1ab A6990V 1.00e+0 P.3
V7390 11619C>T synonymous_variant ORF1ab_pp1a L3873L 7.06e-1 P.3
V9699 696C>T synonymous_variant N S232S 1.00e+0 P.3
V7867 15276C>T synonymous_variant ORF1ab_pp1ab V5092V 1.00e+0 XBF
V8644 174C>T synonymous_variant S F58F 1.00e+0 XBF
V8407 19338C>T synonymous_variant ORF1ab_pp1ab N6446N 1.00e+0 XBK
V3233 19391A>G missense_variant ORF1ab_pp1ab K6464R 1.00e+0 A.18
V3747 662C>T missense_variant S S221L 1.00e+0 A.18
V3956 1720G>T missense_variant S D574Y 1.00e+0 A.18
V7339 11253C>T synonymous_variant ORF1ab_pp1a V3751V 6.97e-1 A.18
V9737 876C>T synonymous_variant N I292I 6.97e-1 A.18
V3969 1841A>G missense_variant S D614G -1.00e+0 AZ.5
V4620 760G>T stop_gained ORF3a G254* 1.00e+0 AZ.5
V4642 788T>C missense_variant ORF3a I263T 1.00e+0 AZ.5
V4643 790T>C missense_variant ORF3a Y264H 1.00e+0 AZ.5
V9247 759C>A synonymous_variant ORF3a S253S 1.00e+0 AZ.5
V1451 6163C>T missense_variant ORF1ab_pp1a P2055S 1.00e+0 B.1.1.152
V3564 152C>T missense_variant S T51I 1.00e+0 B.1.1.152
V4187 3301C>T missense_variant S H1101Y 1.00e+0 B.1.1.152
V760 2441C>T missense_variant ORF1ab_pp1a T814I 1.00e+0 B.1.1.152
V8826 1552C>T synonymous_variant S L518L 1.00e+0 B.1.1.152
V9066 3366G>T synonymous_variant S V1122V 1.00e+0 B.1.1.152
V9198 336C>T synonymous_variant ORF3a V112V 1.00e+0 B.1.1.152
V9357 429G>C synonymous_variant M V143V 1.00e+0 B.1.1.152
V7797 14667C>T synonymous_variant ORF1ab_pp1ab N4889N 1.00e+0 B.1.1.165
V3436 20740G>T missense_variant ORF1ab_pp1ab A6914S 1.00e+0 B.1.1.337
V4979 296C>T missense_variant ORF7a P99L 1.00e+0 B.1.1.337
V5038 92C>T missense_variant ORF7b S31L 1.00e+0 B.1.1.337
V5136 164C>T missense_variant ORF8 A55V 1.00e+0 B.1.1.337
V66 -63C>T upstream_gene_variant ORF1ab_pp1a None 1.00e+0 B.1.1.337
V1646 7217C>T missense_variant ORF1ab_pp1a S2406L 8.65e-1 B.1.1.351
V2467 13307G>T missense_variant ORF1ab_pp1ab G4436V 1.00e+0 B.1.1.385
V5843 72C>T synonymous_variant ORF1ab_pp1a R24R 7.06e-1 B.1.1.385
V6277 2862T>C synonymous_variant ORF1ab_pp1a D954D 7.06e-1 B.1.1.385
V3592 224G>T missense_variant S G75V 1.00e+0 B.1.218
V5417 533G>T missense_variant N G178V 1.00e+0 B.1.218
V6498 4620T>C synonymous_variant ORF1ab_pp1a N1540N 1.00e+0 B.1.218
V8970 2631G>T synonymous_variant S L877L 1.00e+0 B.1.218
V8749 906G>T synonymous_variant S T302T 1.00e+0 B.1.252
V4339 79G>T missense_variant ORF3a D27Y 9.42e-1 B.1.298
V6035 1206C>T synonymous_variant ORF1ab_pp1a R402R 8.32e-1 B.1.340
V1384 5829G>T missense_variant ORF1ab_pp1a Q1943H 1.00e+0 B.1.399
V2269 11755C>T missense_variant ORF1ab_pp1a L3919F 1.00e+0 B.1.399
V4276 3740G>T missense_variant S C1247F 1.00e+0 B.1.399
V699 2182G>T missense_variant ORF1ab_pp1a G728C 1.00e+0 B.1.399
V2524 13681C>T missense_variant ORF1ab_pp1ab P4561S 1.00e+0 B.1.597
V3811 922G>T missense_variant S V308L 1.00e+0 B.1.597
V4883 100C>T missense_variant ORF7a P34S 1.00e+0 B.1.597
V7795 14661C>T synonymous_variant ORF1ab_pp1ab V4887V 1.00e+0 B.1.597
V7827 14952C>T synonymous_variant ORF1ab_pp1ab S4984S 1.00e+0 B.1.597
V4280 3752G>T missense_variant S G1251V 1.00e+0 B.1.605
V4283 3755C>G missense_variant S S1252C 1.00e+0 B.1.605
V4622 766_768delGTT conservative_inframe_deletion ORF3a V256del 7.05e-1 B.1.605
V5601 1094C>T missense_variant N P365L 1.00e+0 B.1.605
V6021 1083C>T synonymous_variant ORF1ab_pp1a P361P 1.00e+0 B.1.617.3
V562 1649G>A missense_variant ORF1ab_pp1a R550H 7.06e-1 BA.1.5
V9174 211C>T synonymous_variant ORF3a L71L 1.00e+0 BA.4.1.2
V1525 6414A>G missense_variant ORF1ab_pp1a I2138M 8.14e-1 BA.5.10.1
V4628 772_779delCCAGTAAT frameshift_variant ORF3a P258fs 8.14e-1 BA.5.10.1
V4624 766_769delGTTA frameshift_variant ORF3a V256fs 7.37e-1 BB.2
V1459 6184C>T missense_variant ORF1ab_pp1a L2062F 1.00e+0 BE.1.4.2
V184 245_253delGTCATGTTA disruptive_inframe_deletion ORF1ab_pp1a G82_M85delinsV 8.15e-1 BE.1.4.2
V4316 48G>C missense_variant ORF3a K16N 1.00e+0 BE.1.4.2
V231 341T>C missense_variant ORF1ab_pp1a I114T 1.00e+0 BQ.1.1.14
V4821 95T>C missense_variant ORF6 I32T 1.00e+0 BQ.1.1.14
V53 -80C>T upstream_gene_variant ORF1ab_pp1a None 1.00e+0 BQ.1.1.14
V7019 8652C>T synonymous_variant ORF1ab_pp1a F2884F 1.00e+0 BQ.1.1.14
V8230 18054G>T synonymous_variant ORF1ab_pp1ab G6018G 1.00e+0 BQ.1.1.14
V9338 351C>T synonymous_variant M N117N 7.06e-1 BQ.1.1.14
V9813 1245C>T synonymous_variant N D415D 1.00e+0 BQ.1.1.14
V1352 5584C>T missense_variant ORF1ab_pp1a P1862S 1.00e+0 P.5
V2754 15811G>T missense_variant ORF1ab_pp1ab D5271Y 1.00e+0 P.5
V5614 1129G>T missense_variant N D377Y 1.00e+0 P.5
V6676 5931C>T synonymous_variant ORF1ab_pp1a P1977P 1.00e+0 P.5
V6723 6198G>T synonymous_variant ORF1ab_pp1a V2066V 1.00e+0 P.5
V864 2912C>T missense_variant ORF1ab_pp1a P971L 1.00e+0 P.5
V2241 11485C>T missense_variant ORF1ab_pp1a L3829F 1.00e+0 XBB.3.2





Manual curation of mutation (775G>T)-related literature from PubMed

The pubmed.mineR and pubmed-mapper were utilized for extracting literature from PubMed, followed by manual filtering.
Note: PubMed: (COVID-19 [Title/Abstract] OR SARS-COV-2 [Title/Abstract]) AND (DNA mutation [Title/Abstract] OR Protein mutation-1 letter [Title/Abstract] OR Protein mutation-3 letter [Title/Abstract]).

DNA level Protein level Paper title Journal name Publication year Pubmed ID
775G>T V259L Investigation of the Molecular Epidemiology and Evolution of Circulating Severe Acute Respiratory Syndrome Coronavirus 2 in Thailand from 2020 to 2022 via Next-Generation Sequencing Viruses 2023 37376693