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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: 11-72373001-G-A (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=11&pos=72373001&ref=G&alt=A&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "11",
      "pos": 72373001,
      "ref": "G",
      "alt": "A",
      "effect": "intron_variant",
      "transcript": "ENST00000538039.6",
      "consequences": [
        {
          "aa_ref": "D",
          "aa_alt": "D",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLPB",
          "gene_hgnc_id": 30664,
          "hgvs_c": "c.660C>T",
          "hgvs_p": "p.Asp220Asp",
          "transcript": "NM_030813.6",
          "protein_id": "NP_110440.1",
          "transcript_support_level": null,
          "aa_start": 220,
          "aa_end": null,
          "aa_length": 707,
          "cds_start": 660,
          "cds_end": null,
          "cds_length": 2124,
          "cdna_start": 717,
          "cdna_end": null,
          "cdna_length": 10053,
          "mane_select": null,
          "mane_plus": "ENST00000294053.9",
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "D",
          "aa_alt": "D",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLPB",
          "gene_hgnc_id": 30664,
          "hgvs_c": "c.660C>T",
          "hgvs_p": "p.Asp220Asp",
          "transcript": "ENST00000294053.9",
          "protein_id": "ENSP00000294053.3",
          "transcript_support_level": 1,
          "aa_start": 220,
          "aa_end": null,
          "aa_length": 707,
          "cds_start": 660,
          "cds_end": null,
          "cds_length": 2124,
          "cdna_start": 717,
          "cdna_end": null,
          "cdna_length": 10053,
          "mane_select": null,
          "mane_plus": "NM_030813.6",
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": 4,
          "intron_rank_end": null,
          "gene_symbol": "CLPB",
          "gene_hgnc_id": 30664,
          "hgvs_c": "c.646+7280C>T",
          "hgvs_p": null,
          "transcript": "NM_001258392.3",
          "protein_id": "NP_001245321.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 677,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 2034,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 9963,
          "mane_select": "ENST00000538039.6",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": 4,
          "intron_rank_end": null,
          "gene_symbol": "CLPB",
          "gene_hgnc_id": 30664,
          "hgvs_c": "c.646+7280C>T",
          "hgvs_p": null,
          "transcript": "ENST00000538039.6",
          "protein_id": "ENSP00000441518.1",
          "transcript_support_level": 2,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 677,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 2034,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 9963,
          "mane_select": "NM_001258392.3",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "D",
          "aa_alt": "D",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLPB",
          "gene_hgnc_id": 30664,
          "hgvs_c": "c.660C>T",
          "hgvs_p": "p.Asp220Asp",
          "transcript": "ENST00000543042.6",
          "protein_id": "ENSP00000439746.2",
          "transcript_support_level": 2,
          "aa_start": 220,
          "aa_end": null,
          "aa_length": 692,
          "cds_start": 660,
          "cds_end": null,
          "cds_length": 2079,
          "cdna_start": 793,
          "cdna_end": null,
          "cdna_length": 2276,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "D",
          "aa_alt": "D",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLPB",
          "gene_hgnc_id": 30664,
          "hgvs_c": "c.525C>T",
          "hgvs_p": "p.Asp175Asp",
          "transcript": "NM_001258394.3",
          "protein_id": "NP_001245323.1",
          "transcript_support_level": null,
          "aa_start": 175,
          "aa_end": null,
          "aa_length": 662,
          "cds_start": 525,
          "cds_end": null,
          "cds_length": 1989,
          "cdna_start": 824,
          "cdna_end": null,
          "cdna_length": 10160,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "D",
          "aa_alt": "D",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLPB",
          "gene_hgnc_id": 30664,
          "hgvs_c": "c.660C>T",
          "hgvs_p": "p.Asp220Asp",
          "transcript": "ENST00000646117.1",
          "protein_id": "ENSP00000495421.1",
          "transcript_support_level": null,
          "aa_start": 220,
          "aa_end": null,
          "aa_length": 327,
          "cds_start": 660,
          "cds_end": null,
          "cds_length": 984,
          "cdna_start": 815,
          "cdna_end": null,
          "cdna_length": 1614,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "D",
          "aa_alt": "D",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLPB",
          "gene_hgnc_id": 30664,
          "hgvs_c": "c.222C>T",
          "hgvs_p": "p.Asp74Asp",
          "transcript": "ENST00000539148.3",
          "protein_id": "ENSP00000445327.1",
          "transcript_support_level": 5,
          "aa_start": 74,
          "aa_end": null,
          "aa_length": 148,
          "cds_start": 222,
          "cds_end": null,
          "cds_length": 447,
          "cdna_start": 339,
          "cdna_end": null,
          "cdna_length": 564,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "D",
          "aa_alt": "D",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLPB",
          "gene_hgnc_id": 30664,
          "hgvs_c": "c.573C>T",
          "hgvs_p": "p.Asp191Asp",
          "transcript": "XM_005274320.2",
          "protein_id": "XP_005274377.1",
          "transcript_support_level": null,
          "aa_start": 191,
          "aa_end": null,
          "aa_length": 678,
          "cds_start": 573,
          "cds_end": null,
          "cds_length": 2037,
          "cdna_start": 630,
          "cdna_end": null,
          "cdna_length": 9966,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "D",
          "aa_alt": "D",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 7,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLPB",
          "gene_hgnc_id": 30664,
          "hgvs_c": "c.147C>T",
          "hgvs_p": "p.Asp49Asp",
          "transcript": "XM_047427656.1",
          "protein_id": "XP_047283612.1",
          "transcript_support_level": null,
          "aa_start": 49,
          "aa_end": null,
          "aa_length": 536,
          "cds_start": 147,
          "cds_end": null,
          "cds_length": 1611,
          "cdna_start": 926,
          "cdna_end": null,
          "cdna_length": 10262,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "D",
          "aa_alt": "D",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLPB",
          "gene_hgnc_id": 30664,
          "hgvs_c": "c.660C>T",
          "hgvs_p": "p.Asp220Asp",
          "transcript": "XM_011545289.3",
          "protein_id": "XP_011543591.1",
          "transcript_support_level": null,
          "aa_start": 220,
          "aa_end": null,
          "aa_length": 371,
          "cds_start": 660,
          "cds_end": null,
          "cds_length": 1116,
          "cdna_start": 717,
          "cdna_end": null,
          "cdna_length": 3661,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLPB",
          "gene_hgnc_id": 30664,
          "hgvs_c": "n.487C>T",
          "hgvs_p": null,
          "transcript": "ENST00000445069.4",
          "protein_id": null,
          "transcript_support_level": 5,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 815,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLPB",
          "gene_hgnc_id": 30664,
          "hgvs_c": "n.*260C>T",
          "hgvs_p": null,
          "transcript": "ENST00000535990.6",
          "protein_id": "ENSP00000443822.2",
          "transcript_support_level": 2,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 2501,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLPB",
          "gene_hgnc_id": 30664,
          "hgvs_c": "n.34C>T",
          "hgvs_p": null,
          "transcript": "ENST00000536297.1",
          "protein_id": "ENSP00000441804.1",
          "transcript_support_level": 5,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 479,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CLPB",
          "gene_hgnc_id": 30664,
          "hgvs_c": "n.*260C>T",
          "hgvs_p": null,
          "transcript": "ENST00000535990.6",
          "protein_id": "ENSP00000443822.2",
          "transcript_support_level": 2,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 2501,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": 3,
          "intron_rank_end": null,
          "gene_symbol": "CLPB",
          "gene_hgnc_id": 30664,
          "hgvs_c": "c.559+7280C>T",
          "hgvs_p": null,
          "transcript": "NM_001258393.3",
          "protein_id": "NP_001245322.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 648,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 1947,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 9876,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": 3,
          "intron_rank_end": null,
          "gene_symbol": "CLPB",
          "gene_hgnc_id": 30664,
          "hgvs_c": "c.559+7280C>T",
          "hgvs_p": null,
          "transcript": "ENST00000340729.9",
          "protein_id": "ENSP00000340385.5",
          "transcript_support_level": 2,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 648,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 1947,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 2071,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": 4,
          "intron_rank_end": null,
          "gene_symbol": "CLPB",
          "gene_hgnc_id": 30664,
          "hgvs_c": "c.133+7280C>T",
          "hgvs_p": null,
          "transcript": "ENST00000642288.1",
          "protein_id": "ENSP00000495167.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 381,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 1146,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 1421,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": 3,
          "intron_rank_end": null,
          "gene_symbol": "CLPB",
          "gene_hgnc_id": 30664,
          "hgvs_c": "c.208+7280C>T",
          "hgvs_p": null,
          "transcript": "ENST00000544683.5",
          "protein_id": "ENSP00000442651.1",
          "transcript_support_level": 5,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 151,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 458,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 624,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": 3,
          "intron_rank_end": null,
          "gene_symbol": "CLPB",
          "gene_hgnc_id": 30664,
          "hgvs_c": "n.*71+7280C>T",
          "hgvs_p": null,
          "transcript": "ENST00000535477.6",
          "protein_id": "ENSP00000440423.2",
          "transcript_support_level": 5,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 2133,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "CLPB",
          "gene_hgnc_id": 30664,
          "hgvs_c": "n.46+7280C>T",
          "hgvs_p": null,
          "transcript": "ENST00000642187.1",
          "protein_id": "ENSP00000494594.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
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          "cds_start": -4,
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        },
        {
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          ],
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          "exon_count": 7,
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          "gene_symbol": "CLPB",
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          "hgvs_c": "n.717+7280C>T",
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          "transcript": "ENST00000695926.1",
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        },
        {
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          "exon_count": 17,
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          "gene_symbol": "CLPB",
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          "hgvs_c": "c.511+7280C>T",
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          "transcript": "XM_047427655.1",
          "protein_id": "XP_047283611.1",
          "transcript_support_level": null,
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          "aa_length": 632,
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          "cds_length": 1899,
          "cdna_start": null,
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          "cdna_length": 10070,
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      ],
      "gene_symbol": "CLPB",
      "gene_hgnc_id": 30664,
      "dbsnp": "rs759358526",
      "frequency_reference_population": 0.00006134452,
      "hom_count_reference_population": 1,
      "allele_count_reference_population": 99,
      "gnomad_exomes_af": 0.0000615692,
      "gnomad_genomes_af": 0.0000591848,
      "gnomad_exomes_ac": 90,
      "gnomad_genomes_ac": 9,
      "gnomad_exomes_homalt": 1,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": -0.5299999713897705,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "BayesDel_noAF",
      "splice_score_selected": 0.10000000149011612,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": null,
      "revel_prediction": null,
      "alphamissense_score": null,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.53,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 0.072,
      "phylop100way_prediction": "Benign",
      "spliceai_max_score": 0.1,
      "spliceai_max_prediction": "Benign",
      "dbscsnv_ada_score": null,
      "dbscsnv_ada_prediction": null,
      "apogee2_score": null,
      "apogee2_prediction": null,
      "mitotip_score": null,
      "mitotip_prediction": null,
      "acmg_score": -6,
      "acmg_classification": "Likely_benign",
      "acmg_criteria": "BP4_Strong,BP6_Moderate",
      "acmg_by_gene": [
        {
          "score": -6,
          "benign_score": 6,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Strong",
            "BP6_Moderate"
          ],
          "verdict": "Likely_benign",
          "transcript": "ENST00000538039.6",
          "gene_symbol": "CLPB",
          "hgnc_id": 30664,
          "effects": [
            "intron_variant"
          ],
          "inheritance_mode": "AR,AD",
          "hgvs_c": "c.646+7280C>T",
          "hgvs_p": null
        }
      ],
      "clinvar_disease": " type VIIB,3-methylglutaconic aciduria",
      "clinvar_classification": "Likely benign",
      "clinvar_review_status": "criteria provided, single submitter",
      "clinvar_submissions_summary": "LB:1",
      "phenotype_combined": "3-methylglutaconic aciduria, type VIIB",
      "pathogenicity_classification_combined": "Likely benign",
      "custom_annotations": null
    }
  ],
  "message": null
}