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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: 8-17653275-T-C (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=8&pos=17653275&ref=T&alt=C&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "8",
      "pos": 17653275,
      "ref": "T",
      "alt": "C",
      "effect": "missense_variant",
      "transcript": "NM_001363059.2",
      "consequences": [
        {
          "aa_ref": "I",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MTUS1",
          "gene_hgnc_id": 29789,
          "hgvs_c": "c.3295A>G",
          "hgvs_p": "p.Ile1099Val",
          "transcript": "NM_001363059.2",
          "protein_id": "NP_001349988.1",
          "transcript_support_level": null,
          "aa_start": 1099,
          "aa_end": null,
          "aa_length": 1270,
          "cds_start": 3295,
          "cds_end": null,
          "cds_length": 3813,
          "cdna_start": 3483,
          "cdna_end": null,
          "cdna_length": 6125,
          "mane_select": "ENST00000693296.1",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "I",
          "aa_alt": "V",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MTUS1",
          "gene_hgnc_id": 29789,
          "hgvs_c": "c.3295A>G",
          "hgvs_p": "p.Ile1099Val",
          "transcript": "ENST00000693296.1",
          "protein_id": "ENSP00000509719.1",
          "transcript_support_level": null,
          "aa_start": 1099,
          "aa_end": null,
          "aa_length": 1270,
          "cds_start": 3295,
          "cds_end": null,
          "cds_length": 3813,
          "cdna_start": 3483,
          "cdna_end": null,
          "cdna_length": 6125,
          "mane_select": "NM_001363059.2",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "I",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MTUS1",
          "gene_hgnc_id": 29789,
          "hgvs_c": "c.3295A>G",
          "hgvs_p": "p.Ile1099Val",
          "transcript": "ENST00000262102.10",
          "protein_id": "ENSP00000262102.6",
          "transcript_support_level": 1,
          "aa_start": 1099,
          "aa_end": null,
          "aa_length": 1270,
          "cds_start": 3295,
          "cds_end": null,
          "cds_length": 3813,
          "cdna_start": 3520,
          "cdna_end": null,
          "cdna_length": 6160,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "I",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 7,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MTUS1",
          "gene_hgnc_id": 29789,
          "hgvs_c": "c.793A>G",
          "hgvs_p": "p.Ile265Val",
          "transcript": "ENST00000297488.10",
          "protein_id": "ENSP00000297488.6",
          "transcript_support_level": 1,
          "aa_start": 265,
          "aa_end": null,
          "aa_length": 436,
          "cds_start": 793,
          "cds_end": null,
          "cds_length": 1311,
          "cdna_start": 1086,
          "cdna_end": null,
          "cdna_length": 3731,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MTUS1",
          "gene_hgnc_id": 29789,
          "hgvs_c": "n.*1043A>G",
          "hgvs_p": null,
          "transcript": "ENST00000520196.5",
          "protein_id": "ENSP00000431016.1",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 5205,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MTUS1",
          "gene_hgnc_id": 29789,
          "hgvs_c": "n.*1043A>G",
          "hgvs_p": null,
          "transcript": "ENST00000520196.5",
          "protein_id": "ENSP00000431016.1",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 5205,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "I",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MTUS1",
          "gene_hgnc_id": 29789,
          "hgvs_c": "c.3295A>G",
          "hgvs_p": "p.Ile1099Val",
          "transcript": "NM_001363057.2",
          "protein_id": "NP_001349986.1",
          "transcript_support_level": null,
          "aa_start": 1099,
          "aa_end": null,
          "aa_length": 1282,
          "cds_start": 3295,
          "cds_end": null,
          "cds_length": 3849,
          "cdna_start": 3483,
          "cdna_end": null,
          "cdna_length": 6121,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "I",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MTUS1",
          "gene_hgnc_id": 29789,
          "hgvs_c": "c.3295A>G",
          "hgvs_p": "p.Ile1099Val",
          "transcript": "NM_001001924.3",
          "protein_id": "NP_001001924.1",
          "transcript_support_level": null,
          "aa_start": 1099,
          "aa_end": null,
          "aa_length": 1270,
          "cds_start": 3295,
          "cds_end": null,
          "cds_length": 3813,
          "cdna_start": 3769,
          "cdna_end": null,
          "cdna_length": 6411,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "I",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MTUS1",
          "gene_hgnc_id": 29789,
          "hgvs_c": "c.3295A>G",
          "hgvs_p": "p.Ile1099Val",
          "transcript": "NM_001363058.2",
          "protein_id": "NP_001349987.1",
          "transcript_support_level": null,
          "aa_start": 1099,
          "aa_end": null,
          "aa_length": 1270,
          "cds_start": 3295,
          "cds_end": null,
          "cds_length": 3813,
          "cdna_start": 3541,
          "cdna_end": null,
          "cdna_length": 6183,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "I",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MTUS1",
          "gene_hgnc_id": 29789,
          "hgvs_c": "c.3295A>G",
          "hgvs_p": "p.Ile1099Val",
          "transcript": "NM_001363061.2",
          "protein_id": "NP_001349990.1",
          "transcript_support_level": null,
          "aa_start": 1099,
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          "aa_length": 1270,
          "cds_start": 3295,
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          "cdna_start": 3510,
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          "mane_select": null,
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        },
        {
          "aa_ref": "I",
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          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
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          "exon_count": 14,
          "intron_rank": null,
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          "gene_symbol": "MTUS1",
          "gene_hgnc_id": 29789,
          "hgvs_c": "c.3133A>G",
          "hgvs_p": "p.Ile1045Val",
          "transcript": "NM_001363060.2",
          "protein_id": "NP_001349989.1",
          "transcript_support_level": null,
          "aa_start": 1045,
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          "cds_start": 3133,
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          "cds_length": 3687,
          "cdna_start": 3321,
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          "mane_select": null,
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        },
        {
          "aa_ref": "I",
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          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
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          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
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          "gene_symbol": "MTUS1",
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          "hgvs_c": "c.3133A>G",
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          "transcript": "NM_001001925.3",
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          "cds_start": 3133,
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          "cdna_start": 3607,
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        {
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          ],
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          "gene_symbol": "MTUS1",
          "gene_hgnc_id": 29789,
          "hgvs_c": "c.3133A>G",
          "hgvs_p": "p.Ile1045Val",
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        {
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          "exon_count": 14,
          "intron_rank": null,
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          "gene_symbol": "MTUS1",
          "gene_hgnc_id": 29789,
          "hgvs_c": "c.3133A>G",
          "hgvs_p": "p.Ile1045Val",
          "transcript": "ENST00000381869.5",
          "protein_id": "ENSP00000371293.3",
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        {
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        },
        {
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          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
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          "gene_symbol": "MTUS1",
          "gene_hgnc_id": 29789,
          "hgvs_c": "c.1036A>G",
          "hgvs_p": "p.Ile346Val",
          "transcript": "NM_001001931.3",
          "protein_id": "NP_001001931.1",
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        },
        {
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          ],
          "exon_rank": 9,
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          "exon_count": 12,
          "intron_rank": null,
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          "gene_symbol": "MTUS1",
          "gene_hgnc_id": 29789,
          "hgvs_c": "c.1036A>G",
          "hgvs_p": "p.Ile346Val",
          "transcript": "ENST00000381861.7",
          "protein_id": "ENSP00000371285.3",
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          "aa_start": 346,
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          "aa_length": 517,
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        {
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          "gene_symbol": "MTUS1",
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        },
        {
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          "gene_symbol": "MTUS1",
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          "hgvs_p": "p.Ile244Val",
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          "feature": null
        },
        {
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          "consequences": [
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          ],
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          "exon_count": 12,
          "intron_rank": null,
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          "gene_symbol": "MTUS1",
          "gene_hgnc_id": 29789,
          "hgvs_c": "c.730A>G",
          "hgvs_p": "p.Ile244Val",
          "transcript": "ENST00000544260.3",
          "protein_id": "ENSP00000445738.1",
          "transcript_support_level": 2,
          "aa_start": 244,
          "aa_end": null,
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          "cdna_start": 1001,
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          "cdna_length": 3650,
          "mane_select": null,
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          "biotype": null,
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        },
        {
          "aa_ref": "I",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
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          "consequences": [
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          ],
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          "exon_rank_end": null,
          "exon_count": 9,
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        },
        {
          "aa_ref": "I",
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          "protein_coding": true,
          "strand": false,
          "consequences": [
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          "exon_count": 9,
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          "protein_coding": false,
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          "consequences": [
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          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
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          "hgvs_c": "n.1658A>G",
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          "transcript_support_level": 2,
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        },
        {
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          "protein_coding": false,
          "strand": false,
          "consequences": [
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          "gene_symbol": "MTUS1",
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          "hgvs_c": "n.990A>G",
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          "transcript": "ENST00000518713.5",
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        },
        {
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          "protein_coding": false,
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          "consequences": [
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          "exon_count": 5,
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          "gene_symbol": "MTUS1",
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          "hgvs_c": "n.546A>G",
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          "transcript": "ENST00000523471.5",
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          "transcript_support_level": 4,
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          "cdna_start": null,
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          "cdna_length": 828,
          "mane_select": null,
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        },
        {
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          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
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          "gene_symbol": "MTUS1",
          "gene_hgnc_id": 29789,
          "hgvs_c": "n.3416A>G",
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          "transcript": "NR_156437.2",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
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          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": 6058,
          "mane_select": null,
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          "biotype": null,
          "feature": null
        }
      ],
      "gene_symbol": "MTUS1",
      "gene_hgnc_id": 29789,
      "dbsnp": "rs201400993",
      "frequency_reference_population": 0.00006441498,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 100,
      "gnomad_exomes_af": 0.0000357115,
      "gnomad_genomes_af": 0.000328248,
      "gnomad_exomes_ac": 50,
      "gnomad_genomes_ac": 50,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.008882790803909302,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0.07999999821186066,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.076,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.1686,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.44,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 3.084,
      "phylop100way_prediction": "Benign",
      "spliceai_max_score": 0.08,
      "spliceai_max_prediction": "Benign",
      "dbscsnv_ada_score": null,
      "dbscsnv_ada_prediction": null,
      "apogee2_score": null,
      "apogee2_prediction": null,
      "mitotip_score": null,
      "mitotip_prediction": null,
      "acmg_score": -4,
      "acmg_classification": "Likely_benign",
      "acmg_criteria": "BP4_Strong",
      "acmg_by_gene": [
        {
          "score": -4,
          "benign_score": 4,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Strong"
          ],
          "verdict": "Likely_benign",
          "transcript": "NM_001363059.2",
          "gene_symbol": "MTUS1",
          "hgnc_id": 29789,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AR",
          "hgvs_c": "c.3295A>G",
          "hgvs_p": "p.Ile1099Val"
        }
      ],
      "clinvar_disease": "not specified",
      "clinvar_classification": "Uncertain significance",
      "clinvar_review_status": "criteria provided, single submitter",
      "clinvar_submissions_summary": "US:1",
      "phenotype_combined": "not specified",
      "pathogenicity_classification_combined": "Uncertain significance",
      "custom_annotations": null
    }
  ],
  "message": null
}