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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: 2-131528046-C-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=2&pos=131528046&ref=C&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "2",
      "pos": 131528046,
      "ref": "C",
      "alt": "T",
      "effect": "missense_variant",
      "transcript": "NM_001349042.2",
      "consequences": [
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCDC74A",
          "gene_hgnc_id": 25197,
          "hgvs_c": "c.76C>T",
          "hgvs_p": "p.Arg26Cys",
          "transcript": "NM_001258306.3",
          "protein_id": "NP_001245235.1",
          "transcript_support_level": null,
          "aa_start": 26,
          "aa_end": null,
          "aa_length": 312,
          "cds_start": 76,
          "cds_end": null,
          "cds_length": 939,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000409856.8",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001258306.3"
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCDC74A",
          "gene_hgnc_id": 25197,
          "hgvs_c": "c.76C>T",
          "hgvs_p": "p.Arg26Cys",
          "transcript": "ENST00000409856.8",
          "protein_id": "ENSP00000387009.3",
          "transcript_support_level": 1,
          "aa_start": 26,
          "aa_end": null,
          "aa_length": 312,
          "cds_start": 76,
          "cds_end": null,
          "cds_length": 939,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_001258306.3",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000409856.8"
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCDC74A",
          "gene_hgnc_id": 25197,
          "hgvs_c": "c.76C>T",
          "hgvs_p": "p.Arg26Cys",
          "transcript": "ENST00000295171.10",
          "protein_id": "ENSP00000295171.6",
          "transcript_support_level": 1,
          "aa_start": 26,
          "aa_end": null,
          "aa_length": 378,
          "cds_start": 76,
          "cds_end": null,
          "cds_length": 1137,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000295171.10"
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCDC74A",
          "gene_hgnc_id": 25197,
          "hgvs_c": "c.76C>T",
          "hgvs_p": "p.Arg26Cys",
          "transcript": "ENST00000467992.6",
          "protein_id": "ENSP00000444610.2",
          "transcript_support_level": 1,
          "aa_start": 26,
          "aa_end": null,
          "aa_length": 272,
          "cds_start": 76,
          "cds_end": null,
          "cds_length": 819,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000467992.6"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 2,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCDC74A",
          "gene_hgnc_id": 25197,
          "hgvs_c": "n.372C>T",
          "hgvs_p": null,
          "transcript": "ENST00000465939.1",
          "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": "retained_intron",
          "feature": "ENST00000465939.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCDC74A",
          "gene_hgnc_id": 25197,
          "hgvs_c": "c.76C>T",
          "hgvs_p": "p.Arg26Cys",
          "transcript": "ENST00000944310.1",
          "protein_id": "ENSP00000614369.1",
          "transcript_support_level": null,
          "aa_start": 26,
          "aa_end": null,
          "aa_length": 512,
          "cds_start": 76,
          "cds_end": null,
          "cds_length": 1539,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000944310.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCDC74A",
          "gene_hgnc_id": 25197,
          "hgvs_c": "c.76C>T",
          "hgvs_p": "p.Arg26Cys",
          "transcript": "ENST00000944305.1",
          "protein_id": "ENSP00000614364.1",
          "transcript_support_level": null,
          "aa_start": 26,
          "aa_end": null,
          "aa_length": 470,
          "cds_start": 76,
          "cds_end": null,
          "cds_length": 1413,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000944305.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCDC74A",
          "gene_hgnc_id": 25197,
          "hgvs_c": "c.76C>T",
          "hgvs_p": "p.Arg26Cys",
          "transcript": "ENST00000944308.1",
          "protein_id": "ENSP00000614367.1",
          "transcript_support_level": null,
          "aa_start": 26,
          "aa_end": null,
          "aa_length": 424,
          "cds_start": 76,
          "cds_end": null,
          "cds_length": 1275,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000944308.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCDC74A",
          "gene_hgnc_id": 25197,
          "hgvs_c": "c.76C>T",
          "hgvs_p": "p.Arg26Cys",
          "transcript": "NM_001349042.2",
          "protein_id": "NP_001335971.1",
          "transcript_support_level": null,
          "aa_start": 26,
          "aa_end": null,
          "aa_length": 420,
          "cds_start": 76,
          "cds_end": null,
          "cds_length": 1263,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001349042.2"
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCDC74A",
          "gene_hgnc_id": 25197,
          "hgvs_c": "c.76C>T",
          "hgvs_p": "p.Arg26Cys",
          "transcript": "ENST00000899934.1",
          "protein_id": "ENSP00000569993.1",
          "transcript_support_level": null,
          "aa_start": 26,
          "aa_end": null,
          "aa_length": 420,
          "cds_start": 76,
          "cds_end": null,
          "cds_length": 1263,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000899934.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCDC74A",
          "gene_hgnc_id": 25197,
          "hgvs_c": "c.76C>T",
          "hgvs_p": "p.Arg26Cys",
          "transcript": "ENST00000899928.1",
          "protein_id": "ENSP00000569987.1",
          "transcript_support_level": null,
          "aa_start": 26,
          "aa_end": null,
          "aa_length": 382,
          "cds_start": 76,
          "cds_end": null,
          "cds_length": 1149,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000899928.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
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          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCDC74A",
          "gene_hgnc_id": 25197,
          "hgvs_c": "c.76C>T",
          "hgvs_p": "p.Arg26Cys",
          "transcript": "ENST00000944307.1",
          "protein_id": "ENSP00000614366.1",
          "transcript_support_level": null,
          "aa_start": 26,
          "aa_end": null,
          "aa_length": 382,
          "cds_start": 76,
          "cds_end": null,
          "cds_length": 1149,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000944307.1"
        },
        {
          "aa_ref": "R",
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          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCDC74A",
          "gene_hgnc_id": 25197,
          "hgvs_c": "c.76C>T",
          "hgvs_p": "p.Arg26Cys",
          "transcript": "NM_138770.4",
          "protein_id": "NP_620125.1",
          "transcript_support_level": null,
          "aa_start": 26,
          "aa_end": null,
          "aa_length": 378,
          "cds_start": 76,
          "cds_end": null,
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          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "NM_138770.4"
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCDC74A",
          "gene_hgnc_id": 25197,
          "hgvs_c": "c.76C>T",
          "hgvs_p": "p.Arg26Cys",
          "transcript": "NM_001258304.3",
          "protein_id": "NP_001245233.1",
          "transcript_support_level": null,
          "aa_start": 26,
          "aa_end": null,
          "aa_length": 375,
          "cds_start": 76,
          "cds_end": null,
          "cds_length": 1128,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "NM_001258304.3"
        },
        {
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          "protein_coding": true,
          "strand": true,
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          ],
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          "intron_rank": null,
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          "gene_symbol": "CCDC74A",
          "gene_hgnc_id": 25197,
          "hgvs_c": "c.76C>T",
          "hgvs_p": "p.Arg26Cys",
          "transcript": "ENST00000899932.1",
          "protein_id": "ENSP00000569991.1",
          "transcript_support_level": null,
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          "aa_end": null,
          "aa_length": 374,
          "cds_start": 76,
          "cds_end": null,
          "cds_length": 1125,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "ENST00000899932.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCDC74A",
          "gene_hgnc_id": 25197,
          "hgvs_c": "c.76C>T",
          "hgvs_p": "p.Arg26Cys",
          "transcript": "ENST00000944304.1",
          "protein_id": "ENSP00000614363.1",
          "transcript_support_level": null,
          "aa_start": 26,
          "aa_end": null,
          "aa_length": 358,
          "cds_start": 76,
          "cds_end": null,
          "cds_length": 1077,
          "cdna_start": null,
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          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "ENST00000944304.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCDC74A",
          "gene_hgnc_id": 25197,
          "hgvs_c": "c.76C>T",
          "hgvs_p": "p.Arg26Cys",
          "transcript": "ENST00000944309.1",
          "protein_id": "ENSP00000614368.1",
          "transcript_support_level": null,
          "aa_start": 26,
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          "aa_length": 358,
          "cds_start": 76,
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        },
        {
          "aa_ref": "R",
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          "protein_coding": true,
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          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCDC74A",
          "gene_hgnc_id": 25197,
          "hgvs_c": "c.76C>T",
          "hgvs_p": "p.Arg26Cys",
          "transcript": "NM_001349043.2",
          "protein_id": "NP_001335972.1",
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          "cds_start": 76,
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          "cds_length": 1065,
          "cdna_start": null,
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          "biotype": "protein_coding",
          "feature": "NM_001349043.2"
        },
        {
          "aa_ref": "R",
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          "protein_coding": true,
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          ],
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          "exon_count": 8,
          "intron_rank": null,
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          "gene_symbol": "CCDC74A",
          "gene_hgnc_id": 25197,
          "hgvs_c": "c.76C>T",
          "hgvs_p": "p.Arg26Cys",
          "transcript": "ENST00000899929.1",
          "protein_id": "ENSP00000569988.1",
          "transcript_support_level": null,
          "aa_start": 26,
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          "cds_start": 76,
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          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000899929.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CCDC74A",
          "gene_hgnc_id": 25197,
          "hgvs_c": "c.76C>T",
          "hgvs_p": "p.Arg26Cys",
          "transcript": "ENST00000944306.1",
          "protein_id": "ENSP00000614365.1",
          "transcript_support_level": null,
          "aa_start": 26,
          "aa_end": null,
          "aa_length": 353,
          "cds_start": 76,
          "cds_end": null,
          "cds_length": 1062,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000944306.1"
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      ],
      "gene_symbol": "CCDC74A",
      "gene_hgnc_id": 25197,
      "dbsnp": "rs756803996",
      "frequency_reference_population": 0.000083365136,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 128,
      "gnomad_exomes_af": 0.000078076,
      "gnomad_genomes_af": 0.000131453,
      "gnomad_exomes_ac": 108,
      "gnomad_genomes_ac": 20,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.04806986451148987,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.085,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.5762,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.47,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 0.177,
      "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": -4,
      "acmg_classification": "Likely_benign",
      "acmg_criteria": "BP4_Strong",
      "acmg_by_gene": [
        {
          "score": -4,
          "benign_score": 4,
          "pathogenic_score": 0,
          "criteria": [
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          ],
          "verdict": "Likely_benign",
          "transcript": "NM_001349042.2",
          "gene_symbol": "CCDC74A",
          "hgnc_id": 25197,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AR",
          "hgvs_c": "c.76C>T",
          "hgvs_p": "p.Arg26Cys"
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      ],
      "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
}