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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: 2-178118179-G-A (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=2&pos=178118179&ref=G&alt=A&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "2",
      "pos": 178118179,
      "ref": "G",
      "alt": "A",
      "effect": "missense_variant,splice_region_variant",
      "transcript": "NM_001365579.1",
      "consequences": [
        {
          "aa_ref": "R",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant",
            "splice_region_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RBM45",
          "gene_hgnc_id": 24468,
          "hgvs_c": "c.548G>A",
          "hgvs_p": "p.Arg183Gln",
          "transcript": "NM_152945.4",
          "protein_id": "NP_694453.2",
          "transcript_support_level": null,
          "aa_start": 183,
          "aa_end": null,
          "aa_length": 474,
          "cds_start": 548,
          "cds_end": null,
          "cds_length": 1425,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000286070.10",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_152945.4"
        },
        {
          "aa_ref": "R",
          "aa_alt": "Q",
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant",
            "splice_region_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RBM45",
          "gene_hgnc_id": 24468,
          "hgvs_c": "c.548G>A",
          "hgvs_p": "p.Arg183Gln",
          "transcript": "ENST00000286070.10",
          "protein_id": "ENSP00000286070.5",
          "transcript_support_level": 1,
          "aa_start": 183,
          "aa_end": null,
          "aa_length": 474,
          "cds_start": 548,
          "cds_end": null,
          "cds_length": 1425,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_152945.4",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000286070.10"
        },
        {
          "aa_ref": "R",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant",
            "splice_region_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RBM45",
          "gene_hgnc_id": 24468,
          "hgvs_c": "c.977G>A",
          "hgvs_p": "p.Arg326Gln",
          "transcript": "ENST00000861657.1",
          "protein_id": "ENSP00000531716.1",
          "transcript_support_level": null,
          "aa_start": 326,
          "aa_end": null,
          "aa_length": 617,
          "cds_start": 977,
          "cds_end": null,
          "cds_length": 1854,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000861657.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant",
            "splice_region_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RBM45",
          "gene_hgnc_id": 24468,
          "hgvs_c": "c.977G>A",
          "hgvs_p": "p.Arg326Gln",
          "transcript": "ENST00000953979.1",
          "protein_id": "ENSP00000624038.1",
          "transcript_support_level": null,
          "aa_start": 326,
          "aa_end": null,
          "aa_length": 617,
          "cds_start": 977,
          "cds_end": null,
          "cds_length": 1854,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000953979.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant",
            "splice_region_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RBM45",
          "gene_hgnc_id": 24468,
          "hgvs_c": "c.977G>A",
          "hgvs_p": "p.Arg326Gln",
          "transcript": "ENST00000953981.1",
          "protein_id": "ENSP00000624040.1",
          "transcript_support_level": null,
          "aa_start": 326,
          "aa_end": null,
          "aa_length": 617,
          "cds_start": 977,
          "cds_end": null,
          "cds_length": 1854,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000953981.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant",
            "splice_region_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RBM45",
          "gene_hgnc_id": 24468,
          "hgvs_c": "c.977G>A",
          "hgvs_p": "p.Arg326Gln",
          "transcript": "ENST00000861659.1",
          "protein_id": "ENSP00000531718.1",
          "transcript_support_level": null,
          "aa_start": 326,
          "aa_end": null,
          "aa_length": 557,
          "cds_start": 977,
          "cds_end": null,
          "cds_length": 1674,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000861659.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant",
            "splice_region_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RBM45",
          "gene_hgnc_id": 24468,
          "hgvs_c": "c.548G>A",
          "hgvs_p": "p.Arg183Gln",
          "transcript": "NM_001365579.1",
          "protein_id": "NP_001352508.1",
          "transcript_support_level": null,
          "aa_start": 183,
          "aa_end": null,
          "aa_length": 476,
          "cds_start": 548,
          "cds_end": null,
          "cds_length": 1431,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001365579.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant",
            "splice_region_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RBM45",
          "gene_hgnc_id": 24468,
          "hgvs_c": "c.548G>A",
          "hgvs_p": "p.Arg183Gln",
          "transcript": "NM_001365578.1",
          "protein_id": "NP_001352507.1",
          "transcript_support_level": null,
          "aa_start": 183,
          "aa_end": null,
          "aa_length": 474,
          "cds_start": 548,
          "cds_end": null,
          "cds_length": 1425,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001365578.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant",
            "splice_region_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RBM45",
          "gene_hgnc_id": 24468,
          "hgvs_c": "c.548G>A",
          "hgvs_p": "p.Arg183Gln",
          "transcript": "ENST00000861654.1",
          "protein_id": "ENSP00000531713.1",
          "transcript_support_level": null,
          "aa_start": 183,
          "aa_end": null,
          "aa_length": 474,
          "cds_start": 548,
          "cds_end": null,
          "cds_length": 1425,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000861654.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant",
            "splice_region_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RBM45",
          "gene_hgnc_id": 24468,
          "hgvs_c": "c.548G>A",
          "hgvs_p": "p.Arg183Gln",
          "transcript": "ENST00000861655.1",
          "protein_id": "ENSP00000531714.1",
          "transcript_support_level": null,
          "aa_start": 183,
          "aa_end": null,
          "aa_length": 474,
          "cds_start": 548,
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          "cdna_start": null,
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          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "ENST00000861655.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant",
            "splice_region_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RBM45",
          "gene_hgnc_id": 24468,
          "hgvs_c": "c.548G>A",
          "hgvs_p": "p.Arg183Gln",
          "transcript": "ENST00000861656.1",
          "protein_id": "ENSP00000531715.1",
          "transcript_support_level": null,
          "aa_start": 183,
          "aa_end": null,
          "aa_length": 474,
          "cds_start": 548,
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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": "R",
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          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant",
            "splice_region_variant"
          ],
          "exon_rank": 3,
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          "exon_count": 9,
          "intron_rank": null,
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          "gene_symbol": "RBM45",
          "gene_hgnc_id": 24468,
          "hgvs_c": "c.548G>A",
          "hgvs_p": "p.Arg183Gln",
          "transcript": "ENST00000861658.1",
          "protein_id": "ENSP00000531717.1",
          "transcript_support_level": null,
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          "cds_start": 548,
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          "cdna_start": null,
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          "biotype": "protein_coding",
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        },
        {
          "aa_ref": "R",
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          "protein_coding": true,
          "strand": true,
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            "splice_region_variant"
          ],
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          "intron_rank": null,
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          "gene_symbol": "RBM45",
          "gene_hgnc_id": 24468,
          "hgvs_c": "c.548G>A",
          "hgvs_p": "p.Arg183Gln",
          "transcript": "ENST00000914888.1",
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          "aa_end": null,
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          "cds_start": 548,
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          "cdna_start": null,
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          "biotype": "protein_coding",
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        },
        {
          "aa_ref": "R",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
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          "consequences": [
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          ],
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          "intron_rank": null,
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          "gene_symbol": "RBM45",
          "gene_hgnc_id": 24468,
          "hgvs_c": "c.548G>A",
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        {
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          ],
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          "intron_rank": null,
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          "gene_symbol": "RBM45",
          "gene_hgnc_id": 24468,
          "hgvs_c": "c.977G>A",
          "hgvs_p": "p.Arg326Gln",
          "transcript": "XM_017003320.2",
          "protein_id": "XP_016858809.1",
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        {
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          "intron_rank": null,
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          "gene_symbol": "RBM45",
          "gene_hgnc_id": 24468,
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          "hgvs_p": "p.Arg326Gln",
          "transcript": "XM_017003321.2",
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        {
          "aa_ref": "R",
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          ],
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          "intron_rank": null,
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        {
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        {
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          "gene_symbol": "RBM45",
          "gene_hgnc_id": 24468,
          "hgvs_c": "c.548G>A",
          "hgvs_p": "p.Arg183Gln",
          "transcript": "XM_047443323.1",
          "protein_id": "XP_047299279.1",
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          "feature": "XM_047443323.1"
        },
        {
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          "protein_coding": true,
          "strand": true,
          "consequences": [
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          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RBM45",
          "gene_hgnc_id": 24468,
          "hgvs_c": "c.548G>A",
          "hgvs_p": "p.Arg183Gln",
          "transcript": "XM_047443324.1",
          "protein_id": "XP_047299280.1",
          "transcript_support_level": null,
          "aa_start": 183,
          "aa_end": null,
          "aa_length": 474,
          "cds_start": 548,
          "cds_end": null,
          "cds_length": 1425,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_047443324.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RBM45",
          "gene_hgnc_id": 24468,
          "hgvs_c": "n.671G>A",
          "hgvs_p": null,
          "transcript": "ENST00000424000.6",
          "protein_id": null,
          "transcript_support_level": 2,
          "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": "retained_intron",
          "feature": "ENST00000424000.6"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RBM45",
          "gene_hgnc_id": 24468,
          "hgvs_c": "n.1087G>A",
          "hgvs_p": null,
          "transcript": "XR_007069526.1",
          "protein_id": null,
          "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": "pseudogene",
          "feature": "XR_007069526.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RBM45",
          "gene_hgnc_id": 24468,
          "hgvs_c": "n.658G>A",
          "hgvs_p": null,
          "transcript": "XR_007069527.1",
          "protein_id": null,
          "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": "pseudogene",
          "feature": "XR_007069527.1"
        }
      ],
      "gene_symbol": "RBM45",
      "gene_hgnc_id": 24468,
      "dbsnp": "rs139412077",
      "frequency_reference_population": 0.000014904296,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 24,
      "gnomad_exomes_af": 0.0000144034,
      "gnomad_genomes_af": 0.0000197003,
      "gnomad_exomes_ac": 21,
      "gnomad_genomes_ac": 3,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.13829836249351501,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0.7400000095367432,
      "splice_prediction_selected": "Pathogenic",
      "splice_source_selected": "dbscSNV1_RF",
      "revel_score": 0.131,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.5031,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.43,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 4.718,
      "phylop100way_prediction": "Uncertain_significance",
      "spliceai_max_score": 0,
      "spliceai_max_prediction": "Benign",
      "dbscsnv_ada_score": 0.918140181502792,
      "dbscsnv_ada_prediction": "Benign",
      "apogee2_score": null,
      "apogee2_prediction": null,
      "mitotip_score": null,
      "mitotip_prediction": null,
      "acmg_score": 0,
      "acmg_classification": "Uncertain_significance",
      "acmg_criteria": "PM2,BP4_Moderate",
      "acmg_by_gene": [
        {
          "score": 0,
          "benign_score": 2,
          "pathogenic_score": 2,
          "criteria": [
            "PM2",
            "BP4_Moderate"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "NM_001365579.1",
          "gene_symbol": "RBM45",
          "hgnc_id": 24468,
          "effects": [
            "missense_variant",
            "splice_region_variant"
          ],
          "inheritance_mode": "AR",
          "hgvs_c": "c.548G>A",
          "hgvs_p": "p.Arg183Gln"
        }
      ],
      "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
}