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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: 2-219382135-C-A (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=2&pos=219382135&ref=C&alt=A&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "2",
      "pos": 219382135,
      "ref": "C",
      "alt": "A",
      "effect": "missense_variant",
      "transcript": "NM_001319116.2",
      "consequences": [
        {
          "aa_ref": "G",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DNPEP",
          "gene_hgnc_id": 2981,
          "hgvs_c": "c.941G>T",
          "hgvs_p": "p.Gly314Val",
          "transcript": "NM_012100.4",
          "protein_id": "NP_036232.2",
          "transcript_support_level": null,
          "aa_start": 314,
          "aa_end": null,
          "aa_length": 485,
          "cds_start": 941,
          "cds_end": null,
          "cds_length": 1458,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000273075.9",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_012100.4"
        },
        {
          "aa_ref": "G",
          "aa_alt": "V",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DNPEP",
          "gene_hgnc_id": 2981,
          "hgvs_c": "c.941G>T",
          "hgvs_p": "p.Gly314Val",
          "transcript": "ENST00000273075.9",
          "protein_id": "ENSP00000273075.4",
          "transcript_support_level": 1,
          "aa_start": 314,
          "aa_end": null,
          "aa_length": 485,
          "cds_start": 941,
          "cds_end": null,
          "cds_length": 1458,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_012100.4",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000273075.9"
        },
        {
          "aa_ref": "G",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DNPEP",
          "gene_hgnc_id": 2981,
          "hgvs_c": "c.965G>T",
          "hgvs_p": "p.Gly322Val",
          "transcript": "NM_001319116.2",
          "protein_id": "NP_001306045.1",
          "transcript_support_level": null,
          "aa_start": 322,
          "aa_end": null,
          "aa_length": 493,
          "cds_start": 965,
          "cds_end": null,
          "cds_length": 1482,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001319116.2"
        },
        {
          "aa_ref": "G",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DNPEP",
          "gene_hgnc_id": 2981,
          "hgvs_c": "c.965G>T",
          "hgvs_p": "p.Gly322Val",
          "transcript": "ENST00000523282.6",
          "protein_id": "ENSP00000431076.1",
          "transcript_support_level": 2,
          "aa_start": 322,
          "aa_end": null,
          "aa_length": 493,
          "cds_start": 965,
          "cds_end": null,
          "cds_length": 1482,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000523282.6"
        },
        {
          "aa_ref": "G",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DNPEP",
          "gene_hgnc_id": 2981,
          "hgvs_c": "c.959G>T",
          "hgvs_p": "p.Gly320Val",
          "transcript": "ENST00000851982.1",
          "protein_id": "ENSP00000522041.1",
          "transcript_support_level": null,
          "aa_start": 320,
          "aa_end": null,
          "aa_length": 491,
          "cds_start": 959,
          "cds_end": null,
          "cds_length": 1476,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000851982.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DNPEP",
          "gene_hgnc_id": 2981,
          "hgvs_c": "c.941G>T",
          "hgvs_p": "p.Gly314Val",
          "transcript": "ENST00000851983.1",
          "protein_id": "ENSP00000522042.1",
          "transcript_support_level": null,
          "aa_start": 314,
          "aa_end": null,
          "aa_length": 481,
          "cds_start": 941,
          "cds_end": null,
          "cds_length": 1446,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000851983.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DNPEP",
          "gene_hgnc_id": 2981,
          "hgvs_c": "c.941G>T",
          "hgvs_p": "p.Gly314Val",
          "transcript": "ENST00000851986.1",
          "protein_id": "ENSP00000522045.1",
          "transcript_support_level": null,
          "aa_start": 314,
          "aa_end": null,
          "aa_length": 480,
          "cds_start": 941,
          "cds_end": null,
          "cds_length": 1443,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000851986.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DNPEP",
          "gene_hgnc_id": 2981,
          "hgvs_c": "c.899G>T",
          "hgvs_p": "p.Gly300Val",
          "transcript": "NM_001319118.2",
          "protein_id": "NP_001306047.1",
          "transcript_support_level": null,
          "aa_start": 300,
          "aa_end": null,
          "aa_length": 471,
          "cds_start": 899,
          "cds_end": null,
          "cds_length": 1416,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001319118.2"
        },
        {
          "aa_ref": "G",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DNPEP",
          "gene_hgnc_id": 2981,
          "hgvs_c": "c.899G>T",
          "hgvs_p": "p.Gly300Val",
          "transcript": "NM_001319119.2",
          "protein_id": "NP_001306048.1",
          "transcript_support_level": null,
          "aa_start": 300,
          "aa_end": null,
          "aa_length": 471,
          "cds_start": 899,
          "cds_end": null,
          "cds_length": 1416,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001319119.2"
        },
        {
          "aa_ref": "G",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DNPEP",
          "gene_hgnc_id": 2981,
          "hgvs_c": "c.899G>T",
          "hgvs_p": "p.Gly300Val",
          "transcript": "ENST00000520694.6",
          "protein_id": "ENSP00000429468.2",
          "transcript_support_level": 3,
          "aa_start": 300,
          "aa_end": null,
          "aa_length": 471,
          "cds_start": 899,
          "cds_end": null,
          "cds_length": 1416,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000520694.6"
        },
        {
          "aa_ref": "G",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DNPEP",
          "gene_hgnc_id": 2981,
          "hgvs_c": "c.857G>T",
          "hgvs_p": "p.Gly286Val",
          "transcript": "NM_001319117.2",
          "protein_id": "NP_001306046.1",
          "transcript_support_level": null,
          "aa_start": 286,
          "aa_end": null,
          "aa_length": 457,
          "cds_start": 857,
          "cds_end": null,
          "cds_length": 1374,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001319117.2"
        },
        {
          "aa_ref": "G",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DNPEP",
          "gene_hgnc_id": 2981,
          "hgvs_c": "c.857G>T",
          "hgvs_p": "p.Gly286Val",
          "transcript": "ENST00000964369.1",
          "protein_id": "ENSP00000634428.1",
          "transcript_support_level": null,
          "aa_start": 286,
          "aa_end": null,
          "aa_length": 457,
          "cds_start": 857,
          "cds_end": null,
          "cds_length": 1374,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000964369.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DNPEP",
          "gene_hgnc_id": 2981,
          "hgvs_c": "c.833G>T",
          "hgvs_p": "p.Gly278Val",
          "transcript": "NM_001319120.2",
          "protein_id": "NP_001306049.1",
          "transcript_support_level": null,
          "aa_start": 278,
          "aa_end": null,
          "aa_length": 449,
          "cds_start": 833,
          "cds_end": null,
          "cds_length": 1350,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001319120.2"
        },
        {
          "aa_ref": "G",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DNPEP",
          "gene_hgnc_id": 2981,
          "hgvs_c": "c.833G>T",
          "hgvs_p": "p.Gly278Val",
          "transcript": "ENST00000925428.1",
          "protein_id": "ENSP00000595487.1",
          "transcript_support_level": null,
          "aa_start": 278,
          "aa_end": null,
          "aa_length": 449,
          "cds_start": 833,
          "cds_end": null,
          "cds_length": 1350,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "ENST00000925428.1"
        },
        {
          "aa_ref": "G",
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          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DNPEP",
          "gene_hgnc_id": 2981,
          "hgvs_c": "c.827G>T",
          "hgvs_p": "p.Gly276Val",
          "transcript": "ENST00000851985.1",
          "protein_id": "ENSP00000522044.1",
          "transcript_support_level": null,
          "aa_start": 276,
          "aa_end": null,
          "aa_length": 447,
          "cds_start": 827,
          "cds_end": null,
          "cds_length": 1344,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000851985.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DNPEP",
          "gene_hgnc_id": 2981,
          "hgvs_c": "c.818G>T",
          "hgvs_p": "p.Gly273Val",
          "transcript": "ENST00000964371.1",
          "protein_id": "ENSP00000634430.1",
          "transcript_support_level": null,
          "aa_start": 273,
          "aa_end": null,
          "aa_length": 444,
          "cds_start": 818,
          "cds_end": null,
          "cds_length": 1335,
          "cdna_start": null,
          "cdna_end": null,
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          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "ENST00000964371.1"
        },
        {
          "aa_ref": "G",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DNPEP",
          "gene_hgnc_id": 2981,
          "hgvs_c": "c.782G>T",
          "hgvs_p": "p.Gly261Val",
          "transcript": "NM_001319121.2",
          "protein_id": "NP_001306050.1",
          "transcript_support_level": null,
          "aa_start": 261,
          "aa_end": null,
          "aa_length": 432,
          "cds_start": 782,
          "cds_end": null,
          "cds_length": 1299,
          "cdna_start": null,
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          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "NM_001319121.2"
        },
        {
          "aa_ref": "G",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
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          ],
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          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DNPEP",
          "gene_hgnc_id": 2981,
          "hgvs_c": "c.782G>T",
          "hgvs_p": "p.Gly261Val",
          "transcript": "NM_001319122.2",
          "protein_id": "NP_001306051.1",
          "transcript_support_level": null,
          "aa_start": 261,
          "aa_end": null,
          "aa_length": 432,
          "cds_start": 782,
          "cds_end": null,
          "cds_length": 1299,
          "cdna_start": null,
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          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001319122.2"
        },
        {
          "aa_ref": "G",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
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          "gene_symbol": "DNPEP",
          "gene_hgnc_id": 2981,
          "hgvs_c": "c.716G>T",
          "hgvs_p": "p.Gly239Val",
          "transcript": "ENST00000373972.5",
          "protein_id": "ENSP00000363083.1",
          "transcript_support_level": 2,
          "aa_start": 239,
          "aa_end": null,
          "aa_length": 410,
          "cds_start": 716,
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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": "ENST00000373972.5"
        },
        {
          "aa_ref": "G",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 8,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DNPEP",
          "gene_hgnc_id": 2981,
          "hgvs_c": "c.644G>T",
          "hgvs_p": "p.Gly215Val",
          "transcript": "ENST00000964370.1",
          "protein_id": "ENSP00000634429.1",
          "transcript_support_level": null,
          "aa_start": 215,
          "aa_end": null,
          "aa_length": 386,
          "cds_start": 644,
          "cds_end": null,
          "cds_length": 1161,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000964370.1"
        },
        {
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        {
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        },
        {
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          "consequences": [
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          ],
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          "gene_symbol": "DNPEP",
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          "hgvs_c": "n.-245G>T",
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          "transcript": "ENST00000490371.5",
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          "biotype": "pseudogene",
          "feature": "ENST00000490371.5"
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      ],
      "gene_symbol": "DNPEP",
      "gene_hgnc_id": 2981,
      "dbsnp": "rs766615900",
      "frequency_reference_population": 0.000093812945,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 151,
      "gnomad_exomes_af": 0.0000912624,
      "gnomad_genomes_af": 0.000118227,
      "gnomad_exomes_ac": 133,
      "gnomad_genomes_ac": 18,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.9665930867195129,
      "computational_prediction_selected": "Pathogenic",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.946,
      "revel_prediction": "Pathogenic",
      "alphamissense_score": 0.9255,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": 0.48,
      "bayesdelnoaf_prediction": "Pathogenic",
      "phylop100way_score": 7.637,
      "phylop100way_prediction": "Pathogenic",
      "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": "Uncertain_significance",
      "acmg_criteria": "PP3_Strong",
      "acmg_by_gene": [
        {
          "score": 4,
          "benign_score": 0,
          "pathogenic_score": 4,
          "criteria": [
            "PP3_Strong"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "NM_001319116.2",
          "gene_symbol": "DNPEP",
          "hgnc_id": 2981,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AR",
          "hgvs_c": "c.965G>T",
          "hgvs_p": "p.Gly322Val"
        }
      ],
      "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
}