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GeneBe API Showcase

This page demonstrates how to use the GeneBe API to query variant information. The API provides programmatic access to genomic annotations and variant data.

API presented here should be used for checking single variants. If you want to check many variants at once, please use other API endpoints that you will find in the documentation.

Documentation & Advanced Usage

Complete API documentation:docs.genebe.net/docs/api/overview/

Interactive endpoint tester:api.genebe.net/cloud/gb-api-doc/swagger-ui/

Python client for pandas:pypi.org/project/genebe/

Java CLI for VCF files:github.com/pstawinski/genebe-cli

All tools documented at:docs.genebe.net

API Request Examples for Variant: 15-33820773-GGATGAAGAAGAA-G (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=15&pos=33820773&ref=GGATGAAGAAGAA&alt=G&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "15",
      "pos": 33820773,
      "ref": "GGATGAAGAAGAA",
      "alt": "G",
      "effect": "disruptive_inframe_deletion",
      "transcript": "NM_001036.6",
      "consequences": [
        {
          "aa_ref": "EEDED",
          "aa_alt": "D",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "disruptive_inframe_deletion"
          ],
          "exon_rank": 78,
          "exon_rank_end": null,
          "exon_count": 104,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RYR3",
          "gene_hgnc_id": 10485,
          "hgvs_c": "c.10785_10796delAGAAGATGAAGA",
          "hgvs_p": "p.Glu3595_Glu3598del",
          "transcript": "NM_001036.6",
          "protein_id": "NP_001027.3",
          "transcript_support_level": null,
          "aa_start": 3595,
          "aa_end": null,
          "aa_length": 4870,
          "cds_start": 10785,
          "cds_end": null,
          "cds_length": 14613,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000634891.2",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001036.6"
        },
        {
          "aa_ref": "EEDED",
          "aa_alt": "D",
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "disruptive_inframe_deletion"
          ],
          "exon_rank": 78,
          "exon_rank_end": null,
          "exon_count": 104,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RYR3",
          "gene_hgnc_id": 10485,
          "hgvs_c": "c.10785_10796delAGAAGATGAAGA",
          "hgvs_p": "p.Glu3595_Glu3598del",
          "transcript": "ENST00000634891.2",
          "protein_id": "ENSP00000489262.1",
          "transcript_support_level": 1,
          "aa_start": 3595,
          "aa_end": null,
          "aa_length": 4870,
          "cds_start": 10785,
          "cds_end": null,
          "cds_length": 14613,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_001036.6",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000634891.2"
        },
        {
          "aa_ref": "EEDED",
          "aa_alt": "D",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "disruptive_inframe_deletion"
          ],
          "exon_rank": 78,
          "exon_rank_end": null,
          "exon_count": 104,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RYR3",
          "gene_hgnc_id": 10485,
          "hgvs_c": "c.10782_10793delAGAAGATGAAGA",
          "hgvs_p": "p.Glu3594_Glu3597del",
          "transcript": "ENST00000389232.9",
          "protein_id": "ENSP00000373884.5",
          "transcript_support_level": 5,
          "aa_start": 3594,
          "aa_end": null,
          "aa_length": 4869,
          "cds_start": 10782,
          "cds_end": null,
          "cds_length": 14610,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000389232.9"
        },
        {
          "aa_ref": "EEDED",
          "aa_alt": "D",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "disruptive_inframe_deletion"
          ],
          "exon_rank": 77,
          "exon_rank_end": null,
          "exon_count": 103,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RYR3",
          "gene_hgnc_id": 10485,
          "hgvs_c": "c.10770_10781delAGAAGATGAAGA",
          "hgvs_p": "p.Glu3590_Glu3593del",
          "transcript": "NM_001243996.4",
          "protein_id": "NP_001230925.1",
          "transcript_support_level": null,
          "aa_start": 3590,
          "aa_end": null,
          "aa_length": 4865,
          "cds_start": 10770,
          "cds_end": null,
          "cds_length": 14598,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001243996.4"
        },
        {
          "aa_ref": "EEDED",
          "aa_alt": "D",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "disruptive_inframe_deletion"
          ],
          "exon_rank": 77,
          "exon_rank_end": null,
          "exon_count": 103,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RYR3",
          "gene_hgnc_id": 10485,
          "hgvs_c": "c.10770_10781delAGAAGATGAAGA",
          "hgvs_p": "p.Glu3590_Glu3593del",
          "transcript": "ENST00000415757.7",
          "protein_id": "ENSP00000399610.3",
          "transcript_support_level": 2,
          "aa_start": 3590,
          "aa_end": null,
          "aa_length": 4865,
          "cds_start": 10770,
          "cds_end": null,
          "cds_length": 14598,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000415757.7"
        },
        {
          "aa_ref": "EEDED",
          "aa_alt": "D",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "disruptive_inframe_deletion"
          ],
          "exon_rank": 77,
          "exon_rank_end": null,
          "exon_count": 102,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RYR3",
          "gene_hgnc_id": 10485,
          "hgvs_c": "c.10770_10781delAGAAGATGAAGA",
          "hgvs_p": "p.Glu3590_Glu3593del",
          "transcript": "ENST00000634418.1",
          "protein_id": "ENSP00000489529.1",
          "transcript_support_level": 5,
          "aa_start": 3590,
          "aa_end": null,
          "aa_length": 4859,
          "cds_start": 10770,
          "cds_end": null,
          "cds_length": 14580,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000634418.1"
        },
        {
          "aa_ref": "EEDED",
          "aa_alt": "D",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "disruptive_inframe_deletion"
          ],
          "exon_rank": 77,
          "exon_rank_end": null,
          "exon_count": 103,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RYR3",
          "gene_hgnc_id": 10485,
          "hgvs_c": "c.10773_10784delAGAAGATGAAGA",
          "hgvs_p": "p.Glu3591_Glu3594del",
          "transcript": "XM_017022468.2",
          "protein_id": "XP_016877957.1",
          "transcript_support_level": null,
          "aa_start": 3591,
          "aa_end": null,
          "aa_length": 4866,
          "cds_start": 10773,
          "cds_end": null,
          "cds_length": 14601,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_017022468.2"
        },
        {
          "aa_ref": "EEDED",
          "aa_alt": "D",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "disruptive_inframe_deletion"
          ],
          "exon_rank": 77,
          "exon_rank_end": null,
          "exon_count": 103,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RYR3",
          "gene_hgnc_id": 10485,
          "hgvs_c": "c.10770_10781delAGAAGATGAAGA",
          "hgvs_p": "p.Glu3590_Glu3593del",
          "transcript": "XM_017022469.2",
          "protein_id": "XP_016877958.1",
          "transcript_support_level": null,
          "aa_start": 3590,
          "aa_end": null,
          "aa_length": 4865,
          "cds_start": 10770,
          "cds_end": null,
          "cds_length": 14598,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_017022469.2"
        },
        {
          "aa_ref": "EEDED",
          "aa_alt": "D",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "disruptive_inframe_deletion"
          ],
          "exon_rank": 77,
          "exon_rank_end": null,
          "exon_count": 103,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RYR3",
          "gene_hgnc_id": 10485,
          "hgvs_c": "c.10770_10781delAGAAGATGAAGA",
          "hgvs_p": "p.Glu3590_Glu3593del",
          "transcript": "XM_017022470.3",
          "protein_id": "XP_016877959.1",
          "transcript_support_level": null,
          "aa_start": 3590,
          "aa_end": null,
          "aa_length": 4865,
          "cds_start": 10770,
          "cds_end": null,
          "cds_length": 14598,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_017022470.3"
        },
        {
          "aa_ref": "EEDED",
          "aa_alt": "D",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "disruptive_inframe_deletion"
          ],
          "exon_rank": 77,
          "exon_rank_end": null,
          "exon_count": 103,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RYR3",
          "gene_hgnc_id": 10485,
          "hgvs_c": "c.10770_10781delAGAAGATGAAGA",
          "hgvs_p": "p.Glu3590_Glu3593del",
          "transcript": "XM_017022471.2",
          "protein_id": "XP_016877960.1",
          "transcript_support_level": null,
          "aa_start": 3590,
          "aa_end": null,
          "aa_length": 4865,
          "cds_start": 10770,
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          "cds_length": 14598,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_017022471.2"
        },
        {
          "aa_ref": "EEDED",
          "aa_alt": "D",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "disruptive_inframe_deletion"
          ],
          "exon_rank": 77,
          "exon_rank_end": null,
          "exon_count": 103,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RYR3",
          "gene_hgnc_id": 10485,
          "hgvs_c": "c.10767_10778delAGAAGATGAAGA",
          "hgvs_p": "p.Glu3589_Glu3592del",
          "transcript": "XM_017022472.2",
          "protein_id": "XP_016877961.1",
          "transcript_support_level": null,
          "aa_start": 3589,
          "aa_end": null,
          "aa_length": 4864,
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          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "XM_017022472.2"
        },
        {
          "aa_ref": "EEDED",
          "aa_alt": "D",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "disruptive_inframe_deletion"
          ],
          "exon_rank": 77,
          "exon_rank_end": null,
          "exon_count": 103,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RYR3",
          "gene_hgnc_id": 10485,
          "hgvs_c": "c.10767_10778delAGAAGATGAAGA",
          "hgvs_p": "p.Glu3589_Glu3592del",
          "transcript": "XM_024450015.2",
          "protein_id": "XP_024305783.1",
          "transcript_support_level": null,
          "aa_start": 3589,
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          "biotype": "protein_coding",
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        },
        {
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          "aa_alt": "D",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "disruptive_inframe_deletion"
          ],
          "exon_rank": 77,
          "exon_rank_end": null,
          "exon_count": 103,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RYR3",
          "gene_hgnc_id": 10485,
          "hgvs_c": "c.10764_10775delAGAAGATGAAGA",
          "hgvs_p": "p.Glu3588_Glu3591del",
          "transcript": "XM_024450016.2",
          "protein_id": "XP_024305784.1",
          "transcript_support_level": null,
          "aa_start": 3588,
          "aa_end": null,
          "aa_length": 4863,
          "cds_start": 10764,
          "cds_end": null,
          "cds_length": 14592,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "XM_024450016.2"
        },
        {
          "aa_ref": "EEDED",
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          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
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          ],
          "exon_rank": 77,
          "exon_rank_end": null,
          "exon_count": 102,
          "intron_rank": null,
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          "gene_symbol": "RYR3",
          "gene_hgnc_id": 10485,
          "hgvs_c": "c.10773_10784delAGAAGATGAAGA",
          "hgvs_p": "p.Glu3591_Glu3594del",
          "transcript": "XM_017022473.2",
          "protein_id": "XP_016877962.1",
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          "biotype": "protein_coding",
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        },
        {
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          "protein_coding": true,
          "strand": true,
          "consequences": [
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          ],
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          "exon_rank_end": null,
          "exon_count": 102,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RYR3",
          "gene_hgnc_id": 10485,
          "hgvs_c": "c.10770_10781delAGAAGATGAAGA",
          "hgvs_p": "p.Glu3590_Glu3593del",
          "transcript": "XM_011521880.3",
          "protein_id": "XP_011520182.1",
          "transcript_support_level": null,
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        },
        {
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          "strand": true,
          "consequences": [
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          ],
          "exon_rank": 77,
          "exon_rank_end": null,
          "exon_count": 103,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RYR3",
          "gene_hgnc_id": 10485,
          "hgvs_c": "c.10752_10763delAGAAGATGAAGA",
          "hgvs_p": "p.Glu3584_Glu3587del",
          "transcript": "XM_017022474.2",
          "protein_id": "XP_016877963.1",
          "transcript_support_level": null,
          "aa_start": 3584,
          "aa_end": null,
          "aa_length": 4859,
          "cds_start": 10752,
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        },
        {
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          "strand": true,
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          ],
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          "exon_count": 102,
          "intron_rank": null,
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          "gene_symbol": "RYR3",
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          "hgvs_c": "c.10773_10784delAGAAGATGAAGA",
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          "transcript": "XM_047432931.1",
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        },
        {
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          "intron_rank": null,
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          "gene_symbol": "RYR3",
          "gene_hgnc_id": 10485,
          "hgvs_c": "c.10773_10784delAGAAGATGAAGA",
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          "transcript": "XM_017022475.2",
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        },
        {
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          "protein_coding": true,
          "strand": true,
          "consequences": [
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          ],
          "exon_rank": 77,
          "exon_rank_end": null,
          "exon_count": 101,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RYR3",
          "gene_hgnc_id": 10485,
          "hgvs_c": "c.10773_10784delAGAAGATGAAGA",
          "hgvs_p": "p.Glu3591_Glu3594del",
          "transcript": "XM_047432932.1",
          "protein_id": "XP_047288888.1",
          "transcript_support_level": null,
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          "gene_hgnc_id": 10485,
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        {
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        {
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          "gene_symbol": "RYR3",
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          "protein_id": "ENSP00000489672.1",
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          "biotype": "nonsense_mediated_decay",
          "feature": "ENST00000635790.1"
        },
        {
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          "protein_coding": false,
          "strand": true,
          "consequences": [
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          ],
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          "intron_rank": null,
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          "gene_symbol": "RYR3",
          "gene_hgnc_id": 10485,
          "hgvs_c": "n.10752_10763delAGAAGATGAAGA",
          "hgvs_p": null,
          "transcript": "XR_001751370.2",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
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          "cdna_start": null,
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          "biotype": "pseudogene",
          "feature": "XR_001751370.2"
        },
        {
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          "protein_coding": false,
          "strand": true,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 34,
          "exon_rank_end": null,
          "exon_count": 59,
          "intron_rank": null,
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          "gene_symbol": "RYR3",
          "gene_hgnc_id": 10485,
          "hgvs_c": "n.*825_*836delAGAAGATGAAGA",
          "hgvs_p": null,
          "transcript": "ENST00000635790.1",
          "protein_id": "ENSP00000489672.1",
          "transcript_support_level": 5,
          "aa_start": null,
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          "cds_start": null,
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          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "nonsense_mediated_decay",
          "feature": "ENST00000635790.1"
        }
      ],
      "gene_symbol": "RYR3",
      "gene_hgnc_id": 10485,
      "dbsnp": "rs1415731316",
      "frequency_reference_population": 0.0000065756594,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 1,
      "gnomad_exomes_af": null,
      "gnomad_genomes_af": 0.00000657566,
      "gnomad_exomes_ac": null,
      "gnomad_genomes_ac": 1,
      "gnomad_exomes_homalt": null,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": null,
      "computational_prediction_selected": null,
      "computational_source_selected": null,
      "splice_score_selected": null,
      "splice_prediction_selected": null,
      "splice_source_selected": null,
      "revel_score": null,
      "revel_prediction": null,
      "alphamissense_score": null,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": null,
      "bayesdelnoaf_prediction": null,
      "phylop100way_score": 7.654,
      "phylop100way_prediction": "Pathogenic",
      "spliceai_max_score": null,
      "spliceai_max_prediction": null,
      "dbscsnv_ada_score": null,
      "dbscsnv_ada_prediction": null,
      "apogee2_score": null,
      "apogee2_prediction": null,
      "mitotip_score": null,
      "mitotip_prediction": null,
      "acmg_score": 3,
      "acmg_classification": "Uncertain_significance",
      "acmg_criteria": "PM4,PP3",
      "acmg_by_gene": [
        {
          "score": 3,
          "benign_score": 0,
          "pathogenic_score": 3,
          "criteria": [
            "PM4",
            "PP3"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "NM_001036.6",
          "gene_symbol": "RYR3",
          "hgnc_id": 10485,
          "effects": [
            "disruptive_inframe_deletion"
          ],
          "inheritance_mode": "AD,AR",
          "hgvs_c": "c.10785_10796delAGAAGATGAAGA",
          "hgvs_p": "p.Glu3595_Glu3598del"
        }
      ],
      "clinvar_disease": "Epileptic encephalopathy",
      "clinvar_classification": "Uncertain significance",
      "clinvar_review_status": "criteria provided, single submitter",
      "clinvar_submissions_summary": "US:1",
      "phenotype_combined": "Epileptic encephalopathy",
      "pathogenicity_classification_combined": "Uncertain significance",
      "custom_annotations": null
    }
  ],
  "message": null
}