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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: 1-9734113-C-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=1&pos=9734113&ref=C&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "1",
      "pos": 9734113,
      "ref": "C",
      "alt": "T",
      "effect": "missense_variant",
      "transcript": "NM_001009566.3",
      "consequences": [
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 15,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
          "hgvs_c": "c.2140G>A",
          "hgvs_p": "p.Val714Met",
          "transcript": "NM_001009566.3",
          "protein_id": "NP_001009566.1",
          "transcript_support_level": null,
          "aa_start": 714,
          "aa_end": null,
          "aa_length": 981,
          "cds_start": 2140,
          "cds_end": null,
          "cds_length": 2946,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000377298.9",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001009566.3"
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 15,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
          "hgvs_c": "c.2140G>A",
          "hgvs_p": "p.Val714Met",
          "transcript": "ENST00000377298.9",
          "protein_id": "ENSP00000366513.4",
          "transcript_support_level": 1,
          "aa_start": 714,
          "aa_end": null,
          "aa_length": 981,
          "cds_start": 2140,
          "cds_end": null,
          "cds_length": 2946,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_001009566.3",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000377298.9"
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 14,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
          "hgvs_c": "c.2110G>A",
          "hgvs_p": "p.Val704Met",
          "transcript": "ENST00000361311.4",
          "protein_id": "ENSP00000354997.4",
          "transcript_support_level": 1,
          "aa_start": 704,
          "aa_end": null,
          "aa_length": 971,
          "cds_start": 2110,
          "cds_end": null,
          "cds_length": 2916,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000361311.4"
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
          "hgvs_c": "c.2146G>A",
          "hgvs_p": "p.Val716Met",
          "transcript": "ENST00000872287.1",
          "protein_id": "ENSP00000542346.1",
          "transcript_support_level": null,
          "aa_start": 716,
          "aa_end": null,
          "aa_length": 983,
          "cds_start": 2146,
          "cds_end": null,
          "cds_length": 2952,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000872287.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 14,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
          "hgvs_c": "c.2140G>A",
          "hgvs_p": "p.Val714Met",
          "transcript": "ENST00000872285.1",
          "protein_id": "ENSP00000542344.1",
          "transcript_support_level": null,
          "aa_start": 714,
          "aa_end": null,
          "aa_length": 981,
          "cds_start": 2140,
          "cds_end": null,
          "cds_length": 2946,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000872285.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 14,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
          "hgvs_c": "c.2110G>A",
          "hgvs_p": "p.Val704Met",
          "transcript": "NM_014944.4",
          "protein_id": "NP_055759.3",
          "transcript_support_level": null,
          "aa_start": 704,
          "aa_end": null,
          "aa_length": 971,
          "cds_start": 2110,
          "cds_end": null,
          "cds_length": 2916,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_014944.4"
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
          "hgvs_c": "c.2110G>A",
          "hgvs_p": "p.Val704Met",
          "transcript": "ENST00000932459.1",
          "protein_id": "ENSP00000602518.1",
          "transcript_support_level": null,
          "aa_start": 704,
          "aa_end": null,
          "aa_length": 971,
          "cds_start": 2110,
          "cds_end": null,
          "cds_length": 2916,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000932459.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 14,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
          "hgvs_c": "c.2107G>A",
          "hgvs_p": "p.Val703Met",
          "transcript": "ENST00000960690.1",
          "protein_id": "ENSP00000630749.1",
          "transcript_support_level": null,
          "aa_start": 703,
          "aa_end": null,
          "aa_length": 970,
          "cds_start": 2107,
          "cds_end": null,
          "cds_length": 2913,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000960690.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 14,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
          "hgvs_c": "c.2104G>A",
          "hgvs_p": "p.Val702Met",
          "transcript": "ENST00000872284.1",
          "protein_id": "ENSP00000542343.1",
          "transcript_support_level": null,
          "aa_start": 702,
          "aa_end": null,
          "aa_length": 969,
          "cds_start": 2104,
          "cds_end": null,
          "cds_length": 2910,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000872284.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 14,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
          "hgvs_c": "c.2104G>A",
          "hgvs_p": "p.Val702Met",
          "transcript": "ENST00000960689.1",
          "protein_id": "ENSP00000630748.1",
          "transcript_support_level": null,
          "aa_start": 702,
          "aa_end": null,
          "aa_length": 969,
          "cds_start": 2104,
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          "cds_length": 2910,
          "cdna_start": null,
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          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000960689.1"
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        {
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          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
          "hgvs_c": "c.2086G>A",
          "hgvs_p": "p.Val696Met",
          "transcript": "ENST00000872288.1",
          "protein_id": "ENSP00000542347.1",
          "transcript_support_level": null,
          "aa_start": 696,
          "aa_end": null,
          "aa_length": 963,
          "cds_start": 2086,
          "cds_end": null,
          "cds_length": 2892,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "ENST00000872288.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
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          "protein_coding": true,
          "strand": false,
          "consequences": [
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          ],
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          "exon_count": 18,
          "intron_rank": null,
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          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
          "hgvs_c": "c.2083G>A",
          "hgvs_p": "p.Val695Met",
          "transcript": "NM_001302883.1",
          "protein_id": "NP_001289812.1",
          "transcript_support_level": null,
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          "aa_length": 962,
          "cds_start": 2083,
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          "cdna_start": null,
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          "mane_select": null,
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          "biotype": "protein_coding",
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        {
          "aa_ref": "V",
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          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
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          "intron_rank": null,
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          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
          "hgvs_c": "c.2068G>A",
          "hgvs_p": "p.Val690Met",
          "transcript": "ENST00000932463.1",
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          "biotype": "protein_coding",
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        },
        {
          "aa_ref": "V",
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          "protein_coding": true,
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          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
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          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
          "hgvs_c": "c.1987G>A",
          "hgvs_p": "p.Val663Met",
          "transcript": "ENST00000932460.1",
          "protein_id": "ENSP00000602519.1",
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        {
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          "intron_rank": null,
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          "hgvs_p": "p.Val660Met",
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          "cdna_start": null,
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          "biotype": "protein_coding",
          "feature": "ENST00000932462.1"
        },
        {
          "aa_ref": "V",
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          ],
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          "intron_rank": null,
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          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
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          "hgvs_p": "p.Val631Met",
          "transcript": "ENST00000960691.1",
          "protein_id": "ENSP00000630750.1",
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          "aa_start": 631,
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        {
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          "exon_count": 17,
          "intron_rank": null,
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          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
          "hgvs_c": "c.1861G>A",
          "hgvs_p": "p.Val621Met",
          "transcript": "ENST00000932458.1",
          "protein_id": "ENSP00000602517.1",
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        {
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          "hgvs_p": "p.Val592Met",
          "transcript": "ENST00000872286.1",
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          "transcript_support_level": null,
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          "mane_select": null,
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          "biotype": "protein_coding",
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        {
          "aa_ref": "V",
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          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
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          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
          "hgvs_c": "c.1648G>A",
          "hgvs_p": "p.Val550Met",
          "transcript": "ENST00000932461.1",
          "protein_id": "ENSP00000602520.1",
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          "aa_end": null,
          "aa_length": 817,
          "cds_start": 1648,
          "cds_end": null,
          "cds_length": 2454,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000932461.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
          "hgvs_c": "c.1543G>A",
          "hgvs_p": "p.Val515Met",
          "transcript": "ENST00000435891.5",
          "protein_id": "ENSP00000401934.1",
          "transcript_support_level": 2,
          "aa_start": 515,
          "aa_end": null,
          "aa_length": 782,
          "cds_start": 1543,
          "cds_end": null,
          "cds_length": 2349,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000435891.5"
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
          "hgvs_c": "c.1369G>A",
          "hgvs_p": "p.Val457Met",
          "transcript": "ENST00000872289.1",
          "protein_id": "ENSP00000542348.1",
          "transcript_support_level": null,
          "aa_start": 457,
          "aa_end": null,
          "aa_length": 724,
          "cds_start": 1369,
          "cds_end": null,
          "cds_length": 2175,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000872289.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
          "hgvs_c": "c.2053G>A",
          "hgvs_p": "p.Val685Met",
          "transcript": "XM_047449470.1",
          "protein_id": "XP_047305426.1",
          "transcript_support_level": null,
          "aa_start": 685,
          "aa_end": null,
          "aa_length": 952,
          "cds_start": 2053,
          "cds_end": null,
          "cds_length": 2859,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_047449470.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 15,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
          "hgvs_c": "n.*1049G>A",
          "hgvs_p": null,
          "transcript": "ENST00000650348.1",
          "protein_id": "ENSP00000497950.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": null,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "nonsense_mediated_decay",
          "feature": "ENST00000650348.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 15,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLSTN1",
          "gene_hgnc_id": 17447,
          "hgvs_c": "n.*1049G>A",
          "hgvs_p": null,
          "transcript": "ENST00000650348.1",
          "protein_id": "ENSP00000497950.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": null,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "nonsense_mediated_decay",
          "feature": "ENST00000650348.1"
        }
      ],
      "gene_symbol": "CLSTN1",
      "gene_hgnc_id": 17447,
      "dbsnp": "rs144169927",
      "frequency_reference_population": 0.00009665332,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 156,
      "gnomad_exomes_af": 0.0000937158,
      "gnomad_genomes_af": 0.000124877,
      "gnomad_exomes_ac": 137,
      "gnomad_genomes_ac": 19,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.09065932035446167,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.05,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.085,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.61,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 4.122,
      "phylop100way_prediction": "Uncertain_significance",
      "spliceai_max_score": 0,
      "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": -6,
      "acmg_classification": "Likely_benign",
      "acmg_criteria": "BP4_Moderate,BS2",
      "acmg_by_gene": [
        {
          "score": -6,
          "benign_score": 6,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Moderate",
            "BS2"
          ],
          "verdict": "Likely_benign",
          "transcript": "NM_001009566.3",
          "gene_symbol": "CLSTN1",
          "hgnc_id": 17447,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AD",
          "hgvs_c": "c.2140G>A",
          "hgvs_p": "p.Val714Met"
        }
      ],
      "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
}