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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: 6-31884482-C-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=6&pos=31884482&ref=C&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "6",
      "pos": 31884482,
      "ref": "C",
      "alt": "T",
      "effect": "missense_variant",
      "transcript": "NM_001363689.2",
      "consequences": [
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 21,
          "exon_rank_end": null,
          "exon_count": 28,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "EHMT2",
          "gene_hgnc_id": 14129,
          "hgvs_c": "c.2681G>A",
          "hgvs_p": "p.Arg894His",
          "transcript": "NM_006709.5",
          "protein_id": "NP_006700.3",
          "transcript_support_level": null,
          "aa_start": 894,
          "aa_end": null,
          "aa_length": 1210,
          "cds_start": 2681,
          "cds_end": null,
          "cds_length": 3633,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000375537.9",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_006709.5"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 21,
          "exon_rank_end": null,
          "exon_count": 28,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "EHMT2",
          "gene_hgnc_id": 14129,
          "hgvs_c": "c.2681G>A",
          "hgvs_p": "p.Arg894His",
          "transcript": "ENST00000375537.9",
          "protein_id": "ENSP00000364687.4",
          "transcript_support_level": 1,
          "aa_start": 894,
          "aa_end": null,
          "aa_length": 1210,
          "cds_start": 2681,
          "cds_end": null,
          "cds_length": 3633,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_006709.5",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000375537.9"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 20,
          "exon_rank_end": null,
          "exon_count": 27,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "EHMT2",
          "gene_hgnc_id": 14129,
          "hgvs_c": "c.2852G>A",
          "hgvs_p": "p.Arg951His",
          "transcript": "ENST00000395728.7",
          "protein_id": "ENSP00000379078.3",
          "transcript_support_level": 1,
          "aa_start": 951,
          "aa_end": null,
          "aa_length": 1267,
          "cds_start": 2852,
          "cds_end": null,
          "cds_length": 3804,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000395728.7"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 20,
          "exon_rank_end": null,
          "exon_count": 27,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "EHMT2",
          "gene_hgnc_id": 14129,
          "hgvs_c": "c.2852G>A",
          "hgvs_p": "p.Arg951His",
          "transcript": "NM_001363689.2",
          "protein_id": "NP_001350618.1",
          "transcript_support_level": null,
          "aa_start": 951,
          "aa_end": null,
          "aa_length": 1267,
          "cds_start": 2852,
          "cds_end": null,
          "cds_length": 3804,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001363689.2"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 21,
          "exon_rank_end": null,
          "exon_count": 29,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "EHMT2",
          "gene_hgnc_id": 14129,
          "hgvs_c": "c.2681G>A",
          "hgvs_p": "p.Arg894His",
          "transcript": "ENST00000962959.1",
          "protein_id": "ENSP00000633018.1",
          "transcript_support_level": null,
          "aa_start": 894,
          "aa_end": null,
          "aa_length": 1251,
          "cds_start": 2681,
          "cds_end": null,
          "cds_length": 3756,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000962959.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 21,
          "exon_rank_end": null,
          "exon_count": 28,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "EHMT2",
          "gene_hgnc_id": 14129,
          "hgvs_c": "c.2681G>A",
          "hgvs_p": "p.Arg894His",
          "transcript": "ENST00000962960.1",
          "protein_id": "ENSP00000633019.1",
          "transcript_support_level": null,
          "aa_start": 894,
          "aa_end": null,
          "aa_length": 1241,
          "cds_start": 2681,
          "cds_end": null,
          "cds_length": 3726,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000962960.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 21,
          "exon_rank_end": null,
          "exon_count": 28,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "EHMT2",
          "gene_hgnc_id": 14129,
          "hgvs_c": "c.2681G>A",
          "hgvs_p": "p.Arg894His",
          "transcript": "ENST00000892701.1",
          "protein_id": "ENSP00000562760.1",
          "transcript_support_level": null,
          "aa_start": 894,
          "aa_end": null,
          "aa_length": 1240,
          "cds_start": 2681,
          "cds_end": null,
          "cds_length": 3723,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000892701.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 19,
          "exon_rank_end": null,
          "exon_count": 26,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "EHMT2",
          "gene_hgnc_id": 14129,
          "hgvs_c": "c.2750G>A",
          "hgvs_p": "p.Arg917His",
          "transcript": "NM_001289413.2",
          "protein_id": "NP_001276342.1",
          "transcript_support_level": null,
          "aa_start": 917,
          "aa_end": null,
          "aa_length": 1233,
          "cds_start": 2750,
          "cds_end": null,
          "cds_length": 3702,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001289413.2"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 19,
          "exon_rank_end": null,
          "exon_count": 26,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "EHMT2",
          "gene_hgnc_id": 14129,
          "hgvs_c": "c.2750G>A",
          "hgvs_p": "p.Arg917His",
          "transcript": "ENST00000375528.8",
          "protein_id": "ENSP00000364678.4",
          "transcript_support_level": 2,
          "aa_start": 917,
          "aa_end": null,
          "aa_length": 1233,
          "cds_start": 2750,
          "cds_end": null,
          "cds_length": 3702,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000375528.8"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 21,
          "exon_rank_end": null,
          "exon_count": 28,
          "intron_rank": null,
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          "gene_symbol": "EHMT2",
          "gene_hgnc_id": 14129,
          "hgvs_c": "c.2681G>A",
          "hgvs_p": "p.Arg894His",
          "transcript": "ENST00000892698.1",
          "protein_id": "ENSP00000562757.1",
          "transcript_support_level": null,
          "aa_start": 894,
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          "aa_length": 1227,
          "cds_start": 2681,
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          "cds_length": 3684,
          "cdna_start": null,
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          "biotype": "protein_coding",
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        {
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          "strand": false,
          "consequences": [
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          ],
          "exon_rank": 21,
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          "exon_count": 28,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "EHMT2",
          "gene_hgnc_id": 14129,
          "hgvs_c": "c.2708G>A",
          "hgvs_p": "p.Arg903His",
          "transcript": "ENST00000892705.1",
          "protein_id": "ENSP00000562764.1",
          "transcript_support_level": null,
          "aa_start": 903,
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          "aa_length": 1219,
          "cds_start": 2708,
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          "cds_length": 3660,
          "cdna_start": null,
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        {
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          "strand": false,
          "consequences": [
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          ],
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          "intron_rank": null,
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          "gene_symbol": "EHMT2",
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          "hgvs_c": "c.2702G>A",
          "hgvs_p": "p.Arg901His",
          "transcript": "NM_001395160.1",
          "protein_id": "NP_001382089.1",
          "transcript_support_level": null,
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          "cds_start": 2702,
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        {
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          ],
          "exon_rank": 21,
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          "gene_symbol": "EHMT2",
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          "hgvs_c": "c.2702G>A",
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          "transcript": "ENST00000892695.1",
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        {
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          "strand": false,
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          ],
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          "exon_count": 28,
          "intron_rank": null,
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          "gene_symbol": "EHMT2",
          "gene_hgnc_id": 14129,
          "hgvs_c": "c.2699G>A",
          "hgvs_p": "p.Arg900His",
          "transcript": "ENST00000920078.1",
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        {
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        {
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          "gene_symbol": "EHMT2",
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          "transcript": "ENST00000920076.1",
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        {
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          "gene_symbol": "EHMT2",
          "gene_hgnc_id": 14129,
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          "feature": "ENST00000892703.1"
        },
        {
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          "protein_coding": true,
          "strand": false,
          "consequences": [
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          ],
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          "exon_count": 27,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "EHMT2",
          "gene_hgnc_id": 14129,
          "hgvs_c": "c.2618G>A",
          "hgvs_p": "p.Arg873His",
          "transcript": "NM_001395161.1",
          "protein_id": "NP_001382090.1",
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          "cds_start": 3236,
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        {
          "aa_ref": "R",
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          "biotype": "protein_coding",
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        {
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          "protein_coding": false,
          "strand": false,
          "consequences": [
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          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
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          "gene_symbol": "EHMT2",
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          "hgvs_c": "n.548G>A",
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          "transcript_support_level": 5,
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        {
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          "consequences": [
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          "exon_count": 9,
          "intron_rank": null,
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          "gene_symbol": "EHMT2",
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          "hgvs_c": "n.240G>A",
          "hgvs_p": null,
          "transcript": "ENST00000478491.5",
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          "cdna_start": null,
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          "biotype": "pseudogene",
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        {
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          "protein_coding": false,
          "strand": false,
          "consequences": [
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          "gene_symbol": "EHMT2",
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          "hgvs_c": "n.2663G>A",
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          "biotype": "pseudogene",
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        {
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          "protein_coding": false,
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          "consequences": [
            "non_coding_transcript_exon_variant"
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          "exon_rank": 3,
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          "exon_count": 10,
          "intron_rank": null,
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          "gene_symbol": "EHMT2",
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          "hgvs_c": "n.1759G>A",
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          "transcript": "ENST00000494816.5",
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          "transcript_support_level": 5,
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          "biotype": "retained_intron",
          "feature": "ENST00000494816.5"
        },
        {
          "aa_ref": null,
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          "protein_coding": false,
          "strand": true,
          "consequences": [
            "downstream_gene_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
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          "gene_symbol": "EHMT2",
          "gene_hgnc_id": 14129,
          "hgvs_c": "n.*191G>A",
          "hgvs_p": null,
          "transcript": "ENST00000477678.1",
          "protein_id": null,
          "transcript_support_level": 2,
          "aa_start": null,
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          "aa_length": 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": "retained_intron",
          "feature": "ENST00000477678.1"
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      ],
      "gene_symbol": "EHMT2",
      "gene_hgnc_id": 14129,
      "dbsnp": "rs143327875",
      "frequency_reference_population": 0.000021081036,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 34,
      "gnomad_exomes_af": 0.0000109537,
      "gnomad_genomes_af": 0.000118321,
      "gnomad_exomes_ac": 16,
      "gnomad_genomes_ac": 18,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.1517622172832489,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.17,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.0871,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.26,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 2.691,
      "phylop100way_prediction": "Benign",
      "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": -2,
      "acmg_classification": "Likely_benign",
      "acmg_criteria": "BP4_Moderate",
      "acmg_by_gene": [
        {
          "score": -2,
          "benign_score": 2,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Moderate"
          ],
          "verdict": "Likely_benign",
          "transcript": "NM_001363689.2",
          "gene_symbol": "EHMT2",
          "hgnc_id": 14129,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AR",
          "hgvs_c": "c.2852G>A",
          "hgvs_p": "p.Arg951His"
        }
      ],
      "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
}