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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: 4-1212335-C-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=4&pos=1212335&ref=C&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "4",
      "pos": 1212335,
      "ref": "C",
      "alt": "T",
      "effect": "missense_variant",
      "transcript": "NM_001377186.1",
      "consequences": [
        {
          "aa_ref": "G",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CTBP1",
          "gene_hgnc_id": 2494,
          "hgvs_c": "c.1195G>A",
          "hgvs_p": "p.Gly399Ser",
          "transcript": "NM_001012614.2",
          "protein_id": "NP_001012632.1",
          "transcript_support_level": null,
          "aa_start": 399,
          "aa_end": null,
          "aa_length": 429,
          "cds_start": 1195,
          "cds_end": null,
          "cds_length": 1290,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000382952.8",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001012614.2"
        },
        {
          "aa_ref": "G",
          "aa_alt": "S",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CTBP1",
          "gene_hgnc_id": 2494,
          "hgvs_c": "c.1195G>A",
          "hgvs_p": "p.Gly399Ser",
          "transcript": "ENST00000382952.8",
          "protein_id": "ENSP00000372411.3",
          "transcript_support_level": 1,
          "aa_start": 399,
          "aa_end": null,
          "aa_length": 429,
          "cds_start": 1195,
          "cds_end": null,
          "cds_length": 1290,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_001012614.2",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000382952.8"
        },
        {
          "aa_ref": "G",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CTBP1",
          "gene_hgnc_id": 2494,
          "hgvs_c": "c.1228G>A",
          "hgvs_p": "p.Gly410Ser",
          "transcript": "ENST00000290921.10",
          "protein_id": "ENSP00000290921.6",
          "transcript_support_level": 1,
          "aa_start": 410,
          "aa_end": null,
          "aa_length": 440,
          "cds_start": 1228,
          "cds_end": null,
          "cds_length": 1323,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000290921.10"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CTBP1-AS",
          "gene_hgnc_id": 48337,
          "hgvs_c": "n.808C>T",
          "hgvs_p": null,
          "transcript": "ENST00000625256.1",
          "protein_id": null,
          "transcript_support_level": 1,
          "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": "ENST00000625256.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CTBP1",
          "gene_hgnc_id": 2494,
          "hgvs_c": "c.1270G>A",
          "hgvs_p": "p.Gly424Ser",
          "transcript": "ENST00000941588.1",
          "protein_id": "ENSP00000611647.1",
          "transcript_support_level": null,
          "aa_start": 424,
          "aa_end": null,
          "aa_length": 454,
          "cds_start": 1270,
          "cds_end": null,
          "cds_length": 1365,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000941588.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CTBP1",
          "gene_hgnc_id": 2494,
          "hgvs_c": "c.1231G>A",
          "hgvs_p": "p.Gly411Ser",
          "transcript": "NM_001377186.1",
          "protein_id": "NP_001364115.1",
          "transcript_support_level": null,
          "aa_start": 411,
          "aa_end": null,
          "aa_length": 441,
          "cds_start": 1231,
          "cds_end": null,
          "cds_length": 1326,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001377186.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CTBP1",
          "gene_hgnc_id": 2494,
          "hgvs_c": "c.1228G>A",
          "hgvs_p": "p.Gly410Ser",
          "transcript": "NM_001328.3",
          "protein_id": "NP_001319.1",
          "transcript_support_level": null,
          "aa_start": 410,
          "aa_end": null,
          "aa_length": 440,
          "cds_start": 1228,
          "cds_end": null,
          "cds_length": 1323,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001328.3"
        },
        {
          "aa_ref": "G",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CTBP1",
          "gene_hgnc_id": 2494,
          "hgvs_c": "c.1198G>A",
          "hgvs_p": "p.Gly400Ser",
          "transcript": "NM_001377187.1",
          "protein_id": "NP_001364116.1",
          "transcript_support_level": null,
          "aa_start": 400,
          "aa_end": null,
          "aa_length": 430,
          "cds_start": 1198,
          "cds_end": null,
          "cds_length": 1293,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001377187.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CTBP1",
          "gene_hgnc_id": 2494,
          "hgvs_c": "c.1198G>A",
          "hgvs_p": "p.Gly400Ser",
          "transcript": "NM_001377188.1",
          "protein_id": "NP_001364117.1",
          "transcript_support_level": null,
          "aa_start": 400,
          "aa_end": null,
          "aa_length": 430,
          "cds_start": 1198,
          "cds_end": null,
          "cds_length": 1293,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001377188.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CTBP1",
          "gene_hgnc_id": 2494,
          "hgvs_c": "c.1198G>A",
          "hgvs_p": "p.Gly400Ser",
          "transcript": "NM_001377189.1",
          "protein_id": "NP_001364118.1",
          "transcript_support_level": null,
          "aa_start": 400,
          "aa_end": null,
          "aa_length": 430,
          "cds_start": 1198,
          "cds_end": null,
          "cds_length": 1293,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001377189.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CTBP1",
          "gene_hgnc_id": 2494,
          "hgvs_c": "c.1198G>A",
          "hgvs_p": "p.Gly400Ser",
          "transcript": "NM_001377190.1",
          "protein_id": "NP_001364119.1",
          "transcript_support_level": null,
          "aa_start": 400,
          "aa_end": null,
          "aa_length": 430,
          "cds_start": 1198,
          "cds_end": null,
          "cds_length": 1293,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001377190.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CTBP1",
          "gene_hgnc_id": 2494,
          "hgvs_c": "c.1198G>A",
          "hgvs_p": "p.Gly400Ser",
          "transcript": "ENST00000503594.6",
          "protein_id": "ENSP00000422148.2",
          "transcript_support_level": 2,
          "aa_start": 400,
          "aa_end": null,
          "aa_length": 430,
          "cds_start": 1198,
          "cds_end": null,
          "cds_length": 1293,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000503594.6"
        },
        {
          "aa_ref": "G",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CTBP1",
          "gene_hgnc_id": 2494,
          "hgvs_c": "c.1198G>A",
          "hgvs_p": "p.Gly400Ser",
          "transcript": "ENST00000703164.1",
          "protein_id": "ENSP00000515212.1",
          "transcript_support_level": null,
          "aa_start": 400,
          "aa_end": null,
          "aa_length": 430,
          "cds_start": 1198,
          "cds_end": null,
          "cds_length": 1293,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000703164.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CTBP1",
          "gene_hgnc_id": 2494,
          "hgvs_c": "c.1198G>A",
          "hgvs_p": "p.Gly400Ser",
          "transcript": "ENST00000703165.1",
          "protein_id": "ENSP00000515213.1",
          "transcript_support_level": null,
          "aa_start": 400,
          "aa_end": null,
          "aa_length": 430,
          "cds_start": 1198,
          "cds_end": null,
          "cds_length": 1293,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000703165.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CTBP1",
          "gene_hgnc_id": 2494,
          "hgvs_c": "c.1198G>A",
          "hgvs_p": "p.Gly400Ser",
          "transcript": "ENST00000909001.1",
          "protein_id": "ENSP00000579060.1",
          "transcript_support_level": null,
          "aa_start": 400,
          "aa_end": null,
          "aa_length": 430,
          "cds_start": 1198,
          "cds_end": null,
          "cds_length": 1293,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000909001.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CTBP1",
          "gene_hgnc_id": 2494,
          "hgvs_c": "c.1198G>A",
          "hgvs_p": "p.Gly400Ser",
          "transcript": "ENST00000909002.1",
          "protein_id": "ENSP00000579061.1",
          "transcript_support_level": null,
          "aa_start": 400,
          "aa_end": null,
          "aa_length": 430,
          "cds_start": 1198,
          "cds_end": null,
          "cds_length": 1293,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000909002.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CTBP1",
          "gene_hgnc_id": 2494,
          "hgvs_c": "c.1198G>A",
          "hgvs_p": "p.Gly400Ser",
          "transcript": "ENST00000909003.1",
          "protein_id": "ENSP00000579062.1",
          "transcript_support_level": null,
          "aa_start": 400,
          "aa_end": null,
          "aa_length": 430,
          "cds_start": 1198,
          "cds_end": null,
          "cds_length": 1293,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000909003.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CTBP1",
          "gene_hgnc_id": 2494,
          "hgvs_c": "c.1198G>A",
          "hgvs_p": "p.Gly400Ser",
          "transcript": "ENST00000909004.1",
          "protein_id": "ENSP00000579063.1",
          "transcript_support_level": null,
          "aa_start": 400,
          "aa_end": null,
          "aa_length": 430,
          "cds_start": 1198,
          "cds_end": null,
          "cds_length": 1293,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000909004.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CTBP1",
          "gene_hgnc_id": 2494,
          "hgvs_c": "c.1198G>A",
          "hgvs_p": "p.Gly400Ser",
          "transcript": "ENST00000909005.1",
          "protein_id": "ENSP00000579064.1",
          "transcript_support_level": null,
          "aa_start": 400,
          "aa_end": null,
          "aa_length": 430,
          "cds_start": 1198,
          "cds_end": null,
          "cds_length": 1293,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000909005.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CTBP1",
          "gene_hgnc_id": 2494,
          "hgvs_c": "c.1198G>A",
          "hgvs_p": "p.Gly400Ser",
          "transcript": "ENST00000909007.1",
          "protein_id": "ENSP00000579066.1",
          "transcript_support_level": null,
          "aa_start": 400,
          "aa_end": null,
          "aa_length": 430,
          "cds_start": 1198,
          "cds_end": null,
          "cds_length": 1293,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000909007.1"
        },
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        {
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          "biotype": "pseudogene",
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      ],
      "gene_symbol": "CTBP1",
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      "dbsnp": "rs1253462797",
      "frequency_reference_population": 0.0000072360995,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 11,
      "gnomad_exomes_af": 0.00000584807,
      "gnomad_genomes_af": 0.000019713,
      "gnomad_exomes_ac": 8,
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      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.2766724228858948,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0.1899999976158142,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.238,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.064,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.3,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 3.323,
      "phylop100way_prediction": "Benign",
      "spliceai_max_score": 0.19,
      "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": -5,
      "acmg_classification": "Likely_benign",
      "acmg_criteria": "BP4,BS2",
      "acmg_by_gene": [
        {
          "score": -5,
          "benign_score": 5,
          "pathogenic_score": 0,
          "criteria": [
            "BP4",
            "BS2"
          ],
          "verdict": "Likely_benign",
          "transcript": "NM_001377186.1",
          "gene_symbol": "CTBP1",
          "hgnc_id": 2494,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AD",
          "hgvs_c": "c.1231G>A",
          "hgvs_p": "p.Gly411Ser"
        },
        {
          "score": 1,
          "benign_score": 1,
          "pathogenic_score": 2,
          "criteria": [
            "PM2",
            "BP4"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "ENST00000625256.1",
          "gene_symbol": "CTBP1-AS",
          "hgnc_id": 48337,
          "effects": [
            "non_coding_transcript_exon_variant"
          ],
          "inheritance_mode": "",
          "hgvs_c": "n.808C>T",
          "hgvs_p": null
        }
      ],
      "clinvar_disease": " and tooth enamel defect syndrome, ataxia, developmental delay,Hypotonia,Inborn genetic diseases",
      "clinvar_classification": "Uncertain significance",
      "clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
      "clinvar_submissions_summary": "US:2",
      "phenotype_combined": "Inborn genetic diseases|Hypotonia, ataxia, developmental delay, and tooth enamel defect syndrome",
      "pathogenicity_classification_combined": "Uncertain significance",
      "custom_annotations": null
    }
  ],
  "message": null
}