Back to top

The current mutation

ID: V1143
DNA: 4192A>G
Protein: I1398V
Position: 4457








COV2Var annotation categories







Summary information of mutation (4192A>G)

Basic Information about Mutation.

  Gene Information   Gene ID   GU280_gp01_pp1a
  Gene Name   ORF1ab_pp1a
  Gene Type   protein_coding
  Genome position   4457
  Reference genome   GenBank ID: NC_045512.2
  Mutation type   missense_variant
  DNA Level   DNA Mutation: 4192A>G
  Ref Seq: A
  Mut Seq: G
  Protein Level   Protein 1-letter Mutation: I1398V
  Protein 3-letter Mutation: Ile1398Val

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 (4192A>G) 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
2020-10 B.1.1.312 69 64 9.28e-1
2020-10 B.1.214 69 3 4.35e-2
2020-10 B.1.2 69 1 1.45e-2
2020-11 B.1.1.312 23 12 5.22e-1
2020-11 B.1.596.1 23 3 1.30e-1
2020-11 AD.2 23 2 8.70e-2
2020-12 B.1.214.1 47 24 5.11e-1
2020-12 B.1.214.2 47 15 3.19e-1
2020-12 B.1.596.1 47 3 6.38e-2
2020-04 B.1.214 8 7 8.75e-1
2020-04 B.1 8 1 1.25e-1
2020-05 B.1.214 31 30 9.68e-1
2020-05 B.1 31 1 3.23e-2
2020-06 B.1.214 6 4 6.67e-1
2020-06 B.1.214.2 6 2 3.33e-1
2020-07 B.1.214 6 3 5.00e-1
2020-07 B.1.91 6 2 3.33e-1
2020-07 B.1.214.2 6 1 1.67e-1
2020-08 B.1.214.2 6 3 5.00e-1
2020-08 B.1.1.312 6 2 3.33e-1
2020-08 B.1.214 6 1 1.67e-1
2020-09 B.1.1.312 32 28 8.75e-1
2020-09 B.1.214 32 3 9.38e-2
2020-09 B.1.596 32 1 3.12e-2
2021-01 B.1.214.2 158 105 6.65e-1
2021-01 B.1.214.3 158 26 1.65e-1
2021-01 B.1.214.1 158 13 8.23e-2
2021-10 AY.4.2 22 7 3.18e-1
2021-10 AY.26 22 4 1.82e-1
2021-10 AY.106 22 2 9.09e-2
2021-11 AY.46.5 65 17 2.62e-1
2021-11 B.1.617.2 65 13 2.00e-1
2021-11 AY.44 65 10 1.54e-1
2021-12 B.1.617.2 112 77 6.88e-1
2021-12 AY.102 112 10 8.93e-2
2021-12 AY.43 112 4 3.57e-2
2021-02 B.1.214.2 495 338 6.83e-1
2021-02 B.1.214.4 495 98 1.98e-1
2021-02 B.1.214.3 495 37 7.47e-2
2021-03 B.1.214.2 685 633 9.24e-1
2021-03 B.1.214.3 685 27 3.94e-2
2021-03 B.1.1.312 685 14 2.04e-2
2021-04 B.1.214.2 385 346 8.99e-1
2021-04 B.1.214.3 385 28 7.27e-2
2021-04 B.1.1.7 385 8 2.08e-2
2021-05 B.1.214.2 183 113 6.17e-1
2021-05 P.1.17 183 57 3.11e-1
2021-05 B.1.1.7 183 8 4.37e-2
2021-06 P.1.17 77 46 5.97e-1
2021-06 B.1.214.2 77 21 2.73e-1
2021-06 B.1.1.7 77 6 7.79e-2
2021-07 P.1.17 42 16 3.81e-1
2021-07 B.1.214.2 42 8 1.90e-1
2021-07 AY.34 42 3 7.14e-2
2021-08 AY.26 17 3 1.76e-1
2021-08 AY.117 17 2 1.18e-1
2021-08 AY.122 17 2 1.18e-1
2021-09 AY.80 31 6 1.94e-1
2021-09 AY.4 31 5 1.61e-1
2021-09 AY.26 31 3 9.68e-2
2022-01 BA.2.9 52 36 6.92e-1
2022-01 BA.1.1 52 4 7.69e-2
2022-01 B.1.617.2 52 3 5.77e-2
2022-10 BA.5 2 2 1.00e+0
2022-11 XBB.1.7 4 4 1.00e+0
2022-12 BA.5.2.48 15 12 8.00e-1
2022-12 BA.5.1.10 15 1 6.67e-2
2022-12 CH.1.1.3 15 1 6.67e-2
2022-02 BA.2.9 224 190 8.48e-1
2022-02 BA.1.1 224 13 5.80e-2
2022-02 BA.1.15 224 5 2.23e-2
2022-03 BA.2.9 542 521 9.61e-1
2022-03 BA.2 542 9 1.66e-2
2022-03 BA.2.10 542 5 9.23e-3
2022-04 BA.2.9 472 461 9.77e-1
2022-04 BA.2 472 9 1.91e-2
2022-04 BA.1.1.1 472 2 4.24e-3
2022-05 BA.2.9 332 320 9.64e-1
2022-05 BA.2.10 332 6 1.81e-2
2022-05 BA.2 332 5 1.51e-2
2022-06 BA.2.9 73 63 8.63e-1
2022-06 BA.2.10 73 5 6.85e-2
2022-06 BF.5 73 2 2.74e-2
2022-07 BA.2.9 15 5 3.33e-1
2022-07 BA.5.5 15 2 1.33e-1
2022-07 BA.5.6 15 2 1.33e-1
2022-08 BA.5.2.20 6 2 3.33e-1
2022-08 BA.2 6 1 1.67e-1
2022-08 BA.5.1.10 6 1 1.67e-1
2022-09 BA.5.6.1 4 3 7.50e-1
2022-09 BA.5.1.3 4 1 2.50e-1
2023-01 BA.5.2.48 35 22 6.29e-1
2023-01 CH.1.1.3 35 5 1.43e-1
2023-01 XBB.2 35 5 1.43e-1
2023-02 BA.5.2.48 6 3 5.00e-1
2023-02 BF.11.1 6 1 1.67e-1
2023-02 BF.5 6 1 1.67e-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
V1143 B.1.1.312 1.28e-1 61 2020-8-13 2021-3-17
V1143 B.1.214 1.00e+0 63 2020-4-18 2021-6-14
V1143 B.1.214.1 1.00e+0 50 2020-12-5 2021-2-26
V1143 B.1.214.2 9.89e-1 1588 2020-6-2 2021-11-5
V1143 B.1.214.3 1.00e+0 123 2020-12-14 2021-7-8
V1143 B.1.214.4 1.00e+0 107 2021-1-25 2021-3-15
V1143 B.1.596.1 8.54e-2 7 2020-9-7 2021-2-22
V1143 P.1.17 1.99e-2 122 2021-2-23 2021-11-19
V1143 XBB.1.7 2.37e-2 4 2022-11-3 2023-2-16






Examining mutation (4192A>G) 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




Association between mutation (4192A>G) 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 8.83e-1 1.45e+0 6.08e-1 5.43e-1 Increase
Deceased -1.46e+0 1.84e+0 -7.96e-1 4.26e-1 Decrease
Homebound 2.45e-15 1.30e+5 1.88e-20 1.00e+0 Increase
Hospitalized 2.05e+0 8.82e-1 2.33e+0 2.00e-2 Increase
Mild 6.54e+0 6.30e+0 1.04e+0 2.99e-1 Increase
Recovered -2.28e+0 8.32e-1 -2.73e+0 6.24e-3 Decrease

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 2.81e-1 2.11e-1 1.33e+0 1.82e-1 Increase
18-39 -4.22e-1 1.13e-1 -3.74e+0 1.81e-4 Decrease
40-64 2.08e-1 1.17e-1 1.77e+0 7.59e-2 Increase
65-84 2.45e-1 1.86e-1 1.32e+0 1.88e-1 Increase
>=85 5.68e-1 3.21e-1 1.77e+0 7.68e-2 Increase

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 -2.81e-1 1.12e-1 -2.51e+0 1.20e-2 Decrease





Investigating natural selection at mutation (4192A>G) 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

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

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 (4192A>G)

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 ORF1ab_pp1a 489974.89 6.04 543550 88.96 -0.023
Reference ORF1ab_pp1a 489988.91 6.04 543550 88.99 -0.023




Alterations in protein stability induced by mutation (4192A>G)

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
I1398V ORF1ab_pp1a Point 1398 -0.69 Decrease 7 25 Environment
I1398V ORF1ab_pp1a Point 1398 -0.55 Decrease 7.4 37 Internal




Impact on protein function induced by mutation (4192A>G)

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
I1398V ORF1ab_pp1a Point 0.076 Altered MoRF (Pr = 0.37 | P = 6.8e-03)
Altered PPI_residue (Pr = 0.27 | P = 0.05)
Loss of Strand (Pr = 0.26 | P = 0.03)
Altered DNA_binding (Pr = 0.21 | P = 0.02)
Loss of Acetylation at K1396 (Pr = 0.17 | P = 0.06)
Altered Calmodulin_binding (Pr = 0.14 | P = 0.06)
Altered Cytoplasmic_loop (Pr = 0.13 | P = 0.02)




Exploring mutation (4192A>G) 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 (4192A>G)

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




Impact of spike protein mutation (4192A>G) 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 (4192A>G) 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).

;
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.

        Show as:

        Show interface residues:





Impact of mutation (4192A>G) 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 (4192A>G) 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
V1417 6055G>A missense_variant ORF1ab_pp1a V2019I 1.00e+0 AY.20
V1529 6430C>T missense_variant ORF1ab_pp1a P2144S 1.00e+0 B.1.429
V4008 2018G>C missense_variant S S673T 6.33e-1 B.1.617.2
V8984 2772C>T synonymous_variant S A924A 6.06e-1 B.1.617.2
V4233 3543A>T missense_variant S K1181N 7.70e-1 BA.2.10
V5107 97G>T missense_variant ORF8 V33F 7.07e-1 XBB.1.5
V9260 12C>T synonymous_variant E F4F 1.00e+0 AD.2
V4008 2018G>C missense_variant S S673T 6.32e-1 AY.102
V7766 14460C>T synonymous_variant ORF1ab_pp1ab F4820F 8.94e-1 AY.106
V8535 20559C>T synonymous_variant ORF1ab_pp1ab N6853N 8.94e-1 AY.106
V9503 126C>T synonymous_variant ORF7b H42H 8.94e-1 AY.106
V4912 177_195delTAGCACTCAATTTGCTTTT frameshift_variant ORF7a F59fs 1.00e+0 AY.111
V5124 135G>T missense_variant ORF8 W45C 7.07e-1 AY.111
V5644 1204G>T missense_variant N D402Y 1.00e+0 AY.111
V7956 15978T>G synonymous_variant ORF1ab_pp1ab V5326V 7.07e-1 AY.111
V4438 232C>T missense_variant ORF3a H78Y 7.07e-1 AY.112.2
V805 2674C>T missense_variant ORF1ab_pp1a P892S 1.00e+0 AY.112.2
V5612 1126G>A missense_variant N A376T 7.07e-1 AY.112
V7289 10740C>T synonymous_variant ORF1ab_pp1a H3580H 1.00e+0 AY.112
V2852 16738C>T missense_variant ORF1ab_pp1ab L5580F 8.16e-1 AY.117
V2951 17414C>T missense_variant ORF1ab_pp1ab T5805M 7.07e-1 AY.117
V6256 2697G>A synonymous_variant ORF1ab_pp1a E899E 7.07e-1 AY.4.2.1
V6446 4191C>T synonymous_variant ORF1ab_pp1a A1397A 7.38e-1 AY.46.5
V4950 242C>T missense_variant ORF7a S81L 7.07e-1 AY.58
V7221 10188T>C synonymous_variant ORF1ab_pp1a N3396N 7.07e-1 AY.59
V7587 13113C>T synonymous_variant ORF1ab_pp1a T4371T 8.65e-1 AY.80
V4395 154C>T missense_variant ORF3a L52F 7.07e-1 B.1.1.222
V5464 610G>A missense_variant N G204R 7.07e-1 B.1.232
V7302 10887C>T synonymous_variant ORF1ab_pp1a V3629V 1.00e+0 B.1.232
V7587 13113C>T synonymous_variant ORF1ab_pp1a T4371T 7.07e-1 B.1.232
V2971 17539T>G missense_variant ORF1ab_pp1ab S5847A 1.00e+0 B.1.258
V1149 4259C>T missense_variant ORF1ab_pp1a A1420V 7.07e-1 B.1.36
V2114 10813T>C missense_variant ORF1ab_pp1a F3605L 7.07e-1 B.1.36
V5033 73C>T missense_variant ORF7b L25F 7.07e-1 B.1.36
V3017 17902C>T missense_variant ORF1ab_pp1ab P5968S 1.00e+0 B.1.596
V3154 18745G>T missense_variant ORF1ab_pp1ab D6249Y 1.00e+0 B.1.596
V3793 782G>T missense_variant S G261V 1.00e+0 B.1.596
V4509 393G>T missense_variant ORF3a W131C 7.07e-1 B.1.596
V4598 670G>T missense_variant ORF3a G224C 1.00e+0 B.1.596
V8790 1239G>T synonymous_variant S G413G 1.00e+0 B.1.596
V8591 20991G>C synonymous_variant ORF1ab_pp1ab A6997A 7.07e-1 BA.2.38
V2577 14002A>G missense_variant ORF1ab_pp1ab T4668A 1.00e+0 BA.5.3.1
V2581 14028C>A missense_variant ORF1ab_pp1ab D4676E 1.00e+0 BA.5.6.1
V495 1348C>T missense_variant ORF1ab_pp1a L450F 1.00e+0 BF.11.1
V7830 14976C>T synonymous_variant ORF1ab_pp1ab N4992N 1.00e+0 BF.11.1
V8591 20991G>C synonymous_variant ORF1ab_pp1ab A6997A 1.00e+0 BF.11.1
V6101 1695C>T synonymous_variant ORF1ab_pp1a A565A 1.00e+0 BN.1.1
V613 1816G>A missense_variant ORF1ab_pp1a V606I 1.00e+0 BN.1.1
V377 925C>T missense_variant ORF1ab_pp1a P309S 6.67e-1 CH.1.1.3
V5743 *4331G>T downstream_gene_variant S None 8.94e-1 N.5
V7120 9481C>T synonymous_variant ORF1ab_pp1a L3161L 7.73e-1 N.5
V7660 13752C>T synonymous_variant ORF1ab_pp1ab F4584F 7.89e-1 N.5
V8098 17061G>A synonymous_variant ORF1ab_pp1ab L5687L 7.89e-1 N.5
V8899 2046G>T synonymous_variant S R682R 6.31e-1 N.5
V9564 39C>T synonymous_variant N P13P 6.31e-1 N.5
V3308 19868C>T missense_variant ORF1ab_pp1ab A6623V 9.31e-1 P.1.17
V3442 20770C>T missense_variant ORF1ab_pp1ab L6924F 1.00e+0 P.1.17
V7967 16065C>T synonymous_variant ORF1ab_pp1ab Y5355Y 1.00e+0 P.1.7
V7206 10071C>T synonymous_variant ORF1ab_pp1a A3357A 1.00e+0 XBB.1.9
V8903 2076C>T synonymous_variant S I692I 7.07e-1 XBB.1.9
V1253 4885G>A missense_variant ORF1ab_pp1a V1629I 1.00e+0 XBB.2
V3411 20495C>T missense_variant ORF1ab_pp1ab A6832V 1.00e+0 XBB.2
V4463 296C>T missense_variant ORF3a A99V 8.45e-1 XBB.2
V6994 8505C>T synonymous_variant ORF1ab_pp1a D2835D 7.45e-1 XBB.2
V7204 10053G>A synonymous_variant ORF1ab_pp1a K3351K 9.13e-1 XBB.2
V825 2780C>T missense_variant ORF1ab_pp1a P927L 1.00e+0 XBB.2
V965 3278C>T missense_variant ORF1ab_pp1a T1093I 1.00e+0 XBB.2
V2670 14996G>T missense_variant ORF1ab_pp1ab S4999I 1.00e+0 B.1.1.312
V7744 14335C>T synonymous_variant ORF1ab_pp1ab L4779L 9.82e-1 B.1.1.312
V8721 663G>T synonymous_variant S S221S 1.00e+0 B.1.1.312
V1828 8507C>T missense_variant ORF1ab_pp1a T2836I 6.38e-1 B.1.596.1
V2472 13353G>T missense_variant ORF1ab_pp1ab K4451N 6.38e-1 B.1.596.1
V2903 17056G>T missense_variant ORF1ab_pp1ab A5686S 6.38e-1 B.1.596.1
V5937 558C>T synonymous_variant ORF1ab_pp1a V186V 6.38e-1 B.1.596.1
V5977 795C>T synonymous_variant ORF1ab_pp1a T265T 6.38e-1 B.1.596.1
V1769 8106G>T missense_variant ORF1ab_pp1a Q2702H 1.00e+0 B.1.91
V8994 2820C>T synonymous_variant S S940S 7.05e-1 B.1.91
V377 925C>T missense_variant ORF1ab_pp1a P309S 1.00e+0 CH.1
V6855 7374C>T synonymous_variant ORF1ab_pp1a F2458F 1.00e+0 CH.1
V932 3161C>T missense_variant ORF1ab_pp1a P1054L 1.00e+0 CH.1





Manual curation of mutation (4192A>G)-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