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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: 1-197617699-A-G (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=1&pos=197617699&ref=A&alt=G&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "1",
      "pos": 197617699,
      "ref": "A",
      "alt": "G",
      "effect": "missense_variant",
      "transcript": "NM_001195215.2",
      "consequences": [
        {
          "aa_ref": "Y",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 23,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DENND1B",
          "gene_hgnc_id": 28404,
          "hgvs_c": "c.733T>C",
          "hgvs_p": "p.Tyr245His",
          "transcript": "NM_001195215.2",
          "protein_id": "NP_001182144.1",
          "transcript_support_level": null,
          "aa_start": 245,
          "aa_end": null,
          "aa_length": 775,
          "cds_start": 733,
          "cds_end": null,
          "cds_length": 2328,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000620048.6",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001195215.2"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "H",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 23,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DENND1B",
          "gene_hgnc_id": 28404,
          "hgvs_c": "c.733T>C",
          "hgvs_p": "p.Tyr245His",
          "transcript": "ENST00000620048.6",
          "protein_id": "ENSP00000479816.1",
          "transcript_support_level": 5,
          "aa_start": 245,
          "aa_end": null,
          "aa_length": 775,
          "cds_start": 733,
          "cds_end": null,
          "cds_length": 2328,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_001195215.2",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000620048.6"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DENND1B",
          "gene_hgnc_id": 28404,
          "hgvs_c": "c.733T>C",
          "hgvs_p": "p.Tyr245His",
          "transcript": "ENST00000367396.7",
          "protein_id": "ENSP00000356366.3",
          "transcript_support_level": 1,
          "aa_start": 245,
          "aa_end": null,
          "aa_length": 426,
          "cds_start": 733,
          "cds_end": null,
          "cds_length": 1281,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000367396.7"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DENND1B",
          "gene_hgnc_id": 28404,
          "hgvs_c": "c.643T>C",
          "hgvs_p": "p.Tyr215His",
          "transcript": "ENST00000235453.8",
          "protein_id": "ENSP00000235453.4",
          "transcript_support_level": 1,
          "aa_start": 215,
          "aa_end": null,
          "aa_length": 396,
          "cds_start": 643,
          "cds_end": null,
          "cds_length": 1191,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000235453.8"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 22,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DENND1B",
          "gene_hgnc_id": 28404,
          "hgvs_c": "c.679T>C",
          "hgvs_p": "p.Tyr227His",
          "transcript": "ENST00000887109.1",
          "protein_id": "ENSP00000557168.1",
          "transcript_support_level": null,
          "aa_start": 227,
          "aa_end": null,
          "aa_length": 757,
          "cds_start": 679,
          "cds_end": null,
          "cds_length": 2274,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000887109.1"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 22,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DENND1B",
          "gene_hgnc_id": 28404,
          "hgvs_c": "c.673T>C",
          "hgvs_p": "p.Tyr225His",
          "transcript": "ENST00000887105.1",
          "protein_id": "ENSP00000557164.1",
          "transcript_support_level": null,
          "aa_start": 225,
          "aa_end": null,
          "aa_length": 755,
          "cds_start": 673,
          "cds_end": null,
          "cds_length": 2268,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000887105.1"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DENND1B",
          "gene_hgnc_id": 28404,
          "hgvs_c": "c.619T>C",
          "hgvs_p": "p.Tyr207His",
          "transcript": "ENST00000887107.1",
          "protein_id": "ENSP00000557166.1",
          "transcript_support_level": null,
          "aa_start": 207,
          "aa_end": null,
          "aa_length": 737,
          "cds_start": 619,
          "cds_end": null,
          "cds_length": 2214,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000887107.1"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 22,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DENND1B",
          "gene_hgnc_id": 28404,
          "hgvs_c": "c.733T>C",
          "hgvs_p": "p.Tyr245His",
          "transcript": "ENST00000887108.1",
          "protein_id": "ENSP00000557167.1",
          "transcript_support_level": null,
          "aa_start": 245,
          "aa_end": null,
          "aa_length": 733,
          "cds_start": 733,
          "cds_end": null,
          "cds_length": 2202,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000887108.1"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DENND1B",
          "gene_hgnc_id": 28404,
          "hgvs_c": "c.673T>C",
          "hgvs_p": "p.Tyr225His",
          "transcript": "ENST00000887111.1",
          "protein_id": "ENSP00000557170.1",
          "transcript_support_level": null,
          "aa_start": 225,
          "aa_end": null,
          "aa_length": 713,
          "cds_start": 673,
          "cds_end": null,
          "cds_length": 2142,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000887111.1"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 8,
          "exon_rank_end": null,
          "exon_count": 20,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DENND1B",
          "gene_hgnc_id": 28404,
          "hgvs_c": "c.508T>C",
          "hgvs_p": "p.Tyr170His",
          "transcript": "ENST00000887110.1",
          "protein_id": "ENSP00000557169.1",
          "transcript_support_level": null,
          "aa_start": 170,
          "aa_end": null,
          "aa_length": 700,
          "cds_start": 508,
          "cds_end": null,
          "cds_length": 2103,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000887110.1"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DENND1B",
          "gene_hgnc_id": 28404,
          "hgvs_c": "c.733T>C",
          "hgvs_p": "p.Tyr245His",
          "transcript": "NM_144977.5",
          "protein_id": "NP_659414.2",
          "transcript_support_level": null,
          "aa_start": 245,
          "aa_end": null,
          "aa_length": 426,
          "cds_start": 733,
          "cds_end": null,
          "cds_length": 1281,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_144977.5"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DENND1B",
          "gene_hgnc_id": 28404,
          "hgvs_c": "c.643T>C",
          "hgvs_p": "p.Tyr215His",
          "transcript": "NM_001300858.2",
          "protein_id": "NP_001287787.1",
          "transcript_support_level": null,
          "aa_start": 215,
          "aa_end": null,
          "aa_length": 396,
          "cds_start": 643,
          "cds_end": null,
          "cds_length": 1191,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001300858.2"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 23,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DENND1B",
          "gene_hgnc_id": 28404,
          "hgvs_c": "c.877T>C",
          "hgvs_p": "p.Tyr293His",
          "transcript": "XM_011509246.3",
          "protein_id": "XP_011507548.1",
          "transcript_support_level": null,
          "aa_start": 293,
          "aa_end": null,
          "aa_length": 823,
          "cds_start": 877,
          "cds_end": null,
          "cds_length": 2472,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_011509246.3"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 22,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DENND1B",
          "gene_hgnc_id": 28404,
          "hgvs_c": "c.817T>C",
          "hgvs_p": "p.Tyr273His",
          "transcript": "XM_011509247.2",
          "protein_id": "XP_011507549.1",
          "transcript_support_level": null,
          "aa_start": 273,
          "aa_end": null,
          "aa_length": 803,
          "cds_start": 817,
          "cds_end": null,
          "cds_length": 2412,
          "cdna_start": null,
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          "mane_select": null,
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          "biotype": "protein_coding",
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        },
        {
          "aa_ref": "Y",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
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          ],
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          "exon_rank_end": null,
          "exon_count": 23,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DENND1B",
          "gene_hgnc_id": 28404,
          "hgvs_c": "c.772T>C",
          "hgvs_p": "p.Tyr258His",
          "transcript": "XM_011509248.3",
          "protein_id": "XP_011507550.1",
          "transcript_support_level": null,
          "aa_start": 258,
          "aa_end": null,
          "aa_length": 788,
          "cds_start": 772,
          "cds_end": null,
          "cds_length": 2367,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_011509248.3"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DENND1B",
          "gene_hgnc_id": 28404,
          "hgvs_c": "c.703T>C",
          "hgvs_p": "p.Tyr235His",
          "transcript": "XM_011509249.3",
          "protein_id": "XP_011507551.1",
          "transcript_support_level": null,
          "aa_start": 235,
          "aa_end": null,
          "aa_length": 765,
          "cds_start": 703,
          "cds_end": null,
          "cds_length": 2298,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_011509249.3"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 22,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DENND1B",
          "gene_hgnc_id": 28404,
          "hgvs_c": "c.673T>C",
          "hgvs_p": "p.Tyr225His",
          "transcript": "XM_005244931.3",
          "protein_id": "XP_005244988.1",
          "transcript_support_level": null,
          "aa_start": 225,
          "aa_end": null,
          "aa_length": 755,
          "cds_start": 673,
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          "cds_length": 2268,
          "cdna_start": null,
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          "biotype": "protein_coding",
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        },
        {
          "aa_ref": "Y",
          "aa_alt": "H",
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          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DENND1B",
          "gene_hgnc_id": 28404,
          "hgvs_c": "c.643T>C",
          "hgvs_p": "p.Tyr215His",
          "transcript": "XM_047447700.1",
          "protein_id": "XP_047303656.1",
          "transcript_support_level": null,
          "aa_start": 215,
          "aa_end": null,
          "aa_length": 745,
          "cds_start": 643,
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          "cds_length": 2238,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_047447700.1"
        },
        {
          "aa_ref": "Y",
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          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 22,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DENND1B",
          "gene_hgnc_id": 28404,
          "hgvs_c": "c.130T>C",
          "hgvs_p": "p.Tyr44His",
          "transcript": "XM_024453626.2",
          "protein_id": "XP_024309394.1",
          "transcript_support_level": null,
          "aa_start": 44,
          "aa_end": null,
          "aa_length": 574,
          "cds_start": 130,
          "cds_end": null,
          "cds_length": 1725,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_024453626.2"
        },
        {
          "aa_ref": "Y",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 23,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "DENND1B",
          "gene_hgnc_id": 28404,
          "hgvs_c": "c.130T>C",
          "hgvs_p": "p.Tyr44His",
          "transcript": "XM_047447711.1",
          "protein_id": "XP_047303667.1",
          "transcript_support_level": null,
          "aa_start": 44,
          "aa_end": null,
          "aa_length": 574,
          "cds_start": 130,
          "cds_end": null,
          "cds_length": 1725,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
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        {
          "aa_ref": null,
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          "hgvs_c": "n.673T>C",
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          "transcript": "ENST00000294737.11",
          "protein_id": "ENSP00000294737.7",
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          "biotype": "nonsense_mediated_decay",
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        {
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          "consequences": [
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          "gene_symbol": "DENND1B",
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          "transcript": "ENST00000496935.1",
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          "biotype": "retained_intron",
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        {
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          "consequences": [
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          ],
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          "exon_count": 20,
          "intron_rank": null,
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          "gene_symbol": "DENND1B",
          "gene_hgnc_id": 28404,
          "hgvs_c": "n.998T>C",
          "hgvs_p": null,
          "transcript": "NR_125340.2",
          "protein_id": null,
          "transcript_support_level": null,
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          "aa_end": null,
          "aa_length": null,
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          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
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          "biotype": "pseudogene",
          "feature": "NR_125340.2"
        }
      ],
      "gene_symbol": "DENND1B",
      "gene_hgnc_id": 28404,
      "dbsnp": null,
      "frequency_reference_population": 0.0000068658496,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 10,
      "gnomad_exomes_af": 0.00000686585,
      "gnomad_genomes_af": null,
      "gnomad_exomes_ac": 10,
      "gnomad_genomes_ac": null,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": null,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.7981207966804504,
      "computational_prediction_selected": "Pathogenic",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0.009999999776482582,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.444,
      "revel_prediction": "Uncertain_significance",
      "alphamissense_score": 0.737,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.09,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 8.927,
      "phylop100way_prediction": "Pathogenic",
      "spliceai_max_score": 0.01,
      "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": 3,
      "acmg_classification": "Uncertain_significance",
      "acmg_criteria": "PM2,PP3",
      "acmg_by_gene": [
        {
          "score": 3,
          "benign_score": 0,
          "pathogenic_score": 3,
          "criteria": [
            "PM2",
            "PP3"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "NM_001195215.2",
          "gene_symbol": "DENND1B",
          "hgnc_id": 28404,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AR",
          "hgvs_c": "c.733T>C",
          "hgvs_p": "p.Tyr245His"
        }
      ],
      "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
}