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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: 19-49188653-G-A (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=19&pos=49188653&ref=G&alt=A&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "19",
      "pos": 49188653,
      "ref": "G",
      "alt": "A",
      "effect": "missense_variant",
      "transcript": "NM_017636.4",
      "consequences": [
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 25,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TRPM4",
          "gene_hgnc_id": 17993,
          "hgvs_c": "c.1756G>A",
          "hgvs_p": "p.Val586Ile",
          "transcript": "NM_017636.4",
          "protein_id": "NP_060106.2",
          "transcript_support_level": null,
          "aa_start": 586,
          "aa_end": null,
          "aa_length": 1214,
          "cds_start": 1756,
          "cds_end": null,
          "cds_length": 3645,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000252826.10",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_017636.4"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 25,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TRPM4",
          "gene_hgnc_id": 17993,
          "hgvs_c": "c.1756G>A",
          "hgvs_p": "p.Val586Ile",
          "transcript": "ENST00000252826.10",
          "protein_id": "ENSP00000252826.4",
          "transcript_support_level": 1,
          "aa_start": 586,
          "aa_end": null,
          "aa_length": 1214,
          "cds_start": 1756,
          "cds_end": null,
          "cds_length": 3645,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_017636.4",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000252826.10"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TRPM4",
          "gene_hgnc_id": 17993,
          "hgvs_c": "c.1756G>A",
          "hgvs_p": "p.Val586Ile",
          "transcript": "ENST00000427978.6",
          "protein_id": "ENSP00000407492.1",
          "transcript_support_level": 1,
          "aa_start": 586,
          "aa_end": null,
          "aa_length": 1069,
          "cds_start": 1756,
          "cds_end": null,
          "cds_length": 3210,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000427978.6"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 23,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TRPM4",
          "gene_hgnc_id": 17993,
          "hgvs_c": "n.*1166G>A",
          "hgvs_p": null,
          "transcript": "ENST00000595519.5",
          "protein_id": "ENSP00000469893.1",
          "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": "nonsense_mediated_decay",
          "feature": "ENST00000595519.5"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TRPM4",
          "gene_hgnc_id": 17993,
          "hgvs_c": "n.*869G>A",
          "hgvs_p": null,
          "transcript": "ENST00000598502.5",
          "protein_id": "ENSP00000470229.1",
          "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": "nonsense_mediated_decay",
          "feature": "ENST00000598502.5"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 23,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TRPM4",
          "gene_hgnc_id": 17993,
          "hgvs_c": "n.*1166G>A",
          "hgvs_p": null,
          "transcript": "ENST00000595519.5",
          "protein_id": "ENSP00000469893.1",
          "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": "nonsense_mediated_decay",
          "feature": "ENST00000595519.5"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TRPM4",
          "gene_hgnc_id": 17993,
          "hgvs_c": "n.*869G>A",
          "hgvs_p": null,
          "transcript": "ENST00000598502.5",
          "protein_id": "ENSP00000470229.1",
          "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": "nonsense_mediated_decay",
          "feature": "ENST00000598502.5"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 25,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TRPM4",
          "gene_hgnc_id": 17993,
          "hgvs_c": "c.1756G>A",
          "hgvs_p": "p.Val586Ile",
          "transcript": "ENST00000864591.1",
          "protein_id": "ENSP00000534650.1",
          "transcript_support_level": null,
          "aa_start": 586,
          "aa_end": null,
          "aa_length": 1211,
          "cds_start": 1756,
          "cds_end": null,
          "cds_length": 3636,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000864591.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 25,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TRPM4",
          "gene_hgnc_id": 17993,
          "hgvs_c": "c.1756G>A",
          "hgvs_p": "p.Val586Ile",
          "transcript": "ENST00000864593.1",
          "protein_id": "ENSP00000534652.1",
          "transcript_support_level": null,
          "aa_start": 586,
          "aa_end": null,
          "aa_length": 1210,
          "cds_start": 1756,
          "cds_end": null,
          "cds_length": 3633,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000864593.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 25,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TRPM4",
          "gene_hgnc_id": 17993,
          "hgvs_c": "c.1756G>A",
          "hgvs_p": "p.Val586Ile",
          "transcript": "ENST00000963018.1",
          "protein_id": "ENSP00000633077.1",
          "transcript_support_level": null,
          "aa_start": 586,
          "aa_end": null,
          "aa_length": 1202,
          "cds_start": 1756,
          "cds_end": null,
          "cds_length": 3609,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000963018.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TRPM4",
          "gene_hgnc_id": 17993,
          "hgvs_c": "c.1756G>A",
          "hgvs_p": "p.Val586Ile",
          "transcript": "ENST00000864590.1",
          "protein_id": "ENSP00000534649.1",
          "transcript_support_level": null,
          "aa_start": 586,
          "aa_end": null,
          "aa_length": 1188,
          "cds_start": 1756,
          "cds_end": null,
          "cds_length": 3567,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000864590.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 25,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TRPM4",
          "gene_hgnc_id": 17993,
          "hgvs_c": "c.1756G>A",
          "hgvs_p": "p.Val586Ile",
          "transcript": "ENST00000864592.1",
          "protein_id": "ENSP00000534651.1",
          "transcript_support_level": null,
          "aa_start": 586,
          "aa_end": null,
          "aa_length": 1186,
          "cds_start": 1756,
          "cds_end": null,
          "cds_length": 3561,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000864592.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 23,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TRPM4",
          "gene_hgnc_id": 17993,
          "hgvs_c": "c.1411G>A",
          "hgvs_p": "p.Val471Ile",
          "transcript": "NM_001321281.2",
          "protein_id": "NP_001308210.1",
          "transcript_support_level": null,
          "aa_start": 471,
          "aa_end": null,
          "aa_length": 1099,
          "cds_start": 1411,
          "cds_end": null,
          "cds_length": 3300,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001321281.2"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TRPM4",
          "gene_hgnc_id": 17993,
          "hgvs_c": "c.1756G>A",
          "hgvs_p": "p.Val586Ile",
          "transcript": "NM_001195227.2",
          "protein_id": "NP_001182156.1",
          "transcript_support_level": null,
          "aa_start": 586,
          "aa_end": null,
          "aa_length": 1069,
          "cds_start": 1756,
          "cds_end": null,
          "cds_length": 3210,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001195227.2"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 23,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TRPM4",
          "gene_hgnc_id": 17993,
          "hgvs_c": "c.1234G>A",
          "hgvs_p": "p.Val412Ile",
          "transcript": "NM_001321283.2",
          "protein_id": "NP_001308212.1",
          "transcript_support_level": null,
          "aa_start": 412,
          "aa_end": null,
          "aa_length": 1040,
          "cds_start": 1234,
          "cds_end": null,
          "cds_length": 3123,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001321283.2"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TRPM4",
          "gene_hgnc_id": 17993,
          "hgvs_c": "c.1063G>A",
          "hgvs_p": "p.Val355Ile",
          "transcript": "ENST00000864589.1",
          "protein_id": "ENSP00000534648.1",
          "transcript_support_level": null,
          "aa_start": 355,
          "aa_end": null,
          "aa_length": 983,
          "cds_start": 1063,
          "cds_end": null,
          "cds_length": 2952,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000864589.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 8,
          "exon_rank_end": null,
          "exon_count": 20,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TRPM4",
          "gene_hgnc_id": 17993,
          "hgvs_c": "c.694G>A",
          "hgvs_p": "p.Val232Ile",
          "transcript": "NM_001321285.2",
          "protein_id": "NP_001308214.1",
          "transcript_support_level": null,
          "aa_start": 232,
          "aa_end": null,
          "aa_length": 860,
          "cds_start": 694,
          "cds_end": null,
          "cds_length": 2583,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001321285.2"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TRPM4",
          "gene_hgnc_id": 17993,
          "hgvs_c": "c.148G>A",
          "hgvs_p": "p.Val50Ile",
          "transcript": "NM_001321282.2",
          "protein_id": "NP_001308211.1",
          "transcript_support_level": null,
          "aa_start": 50,
          "aa_end": null,
          "aa_length": 678,
          "cds_start": 148,
          "cds_end": null,
          "cds_length": 2037,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001321282.2"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 22,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TRPM4",
          "gene_hgnc_id": 17993,
          "hgvs_c": "c.2227G>A",
          "hgvs_p": "p.Val743Ile",
          "transcript": "XM_047438992.1",
          "protein_id": "XP_047294948.1",
          "transcript_support_level": null,
          "aa_start": 743,
          "aa_end": null,
          "aa_length": 1371,
          "cds_start": 2227,
          "cds_end": null,
          "cds_length": 4116,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_047438992.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TRPM4",
          "gene_hgnc_id": 17993,
          "hgvs_c": "c.469G>A",
          "hgvs_p": "p.Val157Ile",
          "transcript": "XM_047438993.1",
          "protein_id": "XP_047294949.1",
          "transcript_support_level": null,
          "aa_start": 157,
          "aa_end": null,
          "aa_length": 785,
          "cds_start": 469,
          "cds_end": null,
          "cds_length": 2358,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
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        {
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          "consequences": [
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          "transcript": "ENST00000598697.5",
          "protein_id": "ENSP00000468989.1",
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          "cdna_start": null,
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          "biotype": "nonsense_mediated_decay",
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        {
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          "protein_coding": false,
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          "consequences": [
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        {
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          "protein_coding": false,
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          "consequences": [
            "upstream_gene_variant"
          ],
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          "exon_count": 3,
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          "gene_symbol": "TRPM4",
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          "hgvs_c": "n.-215G>A",
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          "transcript": "ENST00000595882.1",
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          "biotype": "retained_intron",
          "feature": "ENST00000595882.1"
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      ],
      "gene_symbol": "TRPM4",
      "gene_hgnc_id": 17993,
      "dbsnp": "rs369462197",
      "frequency_reference_population": 0.0000013680939,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 2,
      "gnomad_exomes_af": 0.00000136809,
      "gnomad_genomes_af": null,
      "gnomad_exomes_ac": 2,
      "gnomad_genomes_ac": null,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": null,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.3794032335281372,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.284,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.1263,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.34,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 1.738,
      "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": 1,
      "acmg_classification": "Uncertain_significance",
      "acmg_criteria": "PM2,BP4",
      "acmg_by_gene": [
        {
          "score": 1,
          "benign_score": 1,
          "pathogenic_score": 2,
          "criteria": [
            "PM2",
            "BP4"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "NM_017636.4",
          "gene_symbol": "TRPM4",
          "hgnc_id": 17993,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AD",
          "hgvs_c": "c.1756G>A",
          "hgvs_p": "p.Val586Ile"
        }
      ],
      "clinvar_disease": "",
      "clinvar_classification": "",
      "clinvar_review_status": "",
      "clinvar_submissions_summary": "",
      "phenotype_combined": null,
      "pathogenicity_classification_combined": null,
      "custom_annotations": null
    }
  ],
  "message": null
}