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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: 11-791990-G-A (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=11&pos=791990&ref=G&alt=A&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "11",
      "pos": 791990,
      "ref": "G",
      "alt": "A",
      "effect": "synonymous_variant",
      "transcript": "ENST00000628067.3",
      "consequences": [
        {
          "aa_ref": "F",
          "aa_alt": "F",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.897C>T",
          "hgvs_p": "p.Phe299Phe",
          "transcript": "NM_001191061.2",
          "protein_id": "NP_001177990.1",
          "transcript_support_level": null,
          "aa_start": 299,
          "aa_end": null,
          "aa_length": 323,
          "cds_start": 897,
          "cds_end": null,
          "cds_length": 972,
          "cdna_start": 1125,
          "cdna_end": null,
          "cdna_length": 2640,
          "mane_select": "ENST00000628067.3",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": "F",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.897C>T",
          "hgvs_p": "p.Phe299Phe",
          "transcript": "ENST00000628067.3",
          "protein_id": "ENSP00000486058.1",
          "transcript_support_level": 1,
          "aa_start": 299,
          "aa_end": null,
          "aa_length": 323,
          "cds_start": 897,
          "cds_end": null,
          "cds_length": 972,
          "cdna_start": 1125,
          "cdna_end": null,
          "cdna_length": 2640,
          "mane_select": "NM_001191061.2",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": "F",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.897C>T",
          "hgvs_p": "p.Phe299Phe",
          "transcript": "ENST00000320230.9",
          "protein_id": "ENSP00000322020.5",
          "transcript_support_level": 1,
          "aa_start": 299,
          "aa_end": null,
          "aa_length": 323,
          "cds_start": 897,
          "cds_end": null,
          "cds_length": 972,
          "cdna_start": 1281,
          "cdna_end": null,
          "cdna_length": 2796,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": "F",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.972C>T",
          "hgvs_p": "p.Phe324Phe",
          "transcript": "NM_001425334.1",
          "protein_id": "NP_001412263.1",
          "transcript_support_level": null,
          "aa_start": 324,
          "aa_end": null,
          "aa_length": 348,
          "cds_start": 972,
          "cds_end": null,
          "cds_length": 1047,
          "cdna_start": 1200,
          "cdna_end": null,
          "cdna_length": 2715,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": "F",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.936C>T",
          "hgvs_p": "p.Phe312Phe",
          "transcript": "NM_001425335.1",
          "protein_id": "NP_001412264.1",
          "transcript_support_level": null,
          "aa_start": 312,
          "aa_end": null,
          "aa_length": 336,
          "cds_start": 936,
          "cds_end": null,
          "cds_length": 1011,
          "cdna_start": 1164,
          "cdna_end": null,
          "cdna_length": 2679,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": "F",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.912C>T",
          "hgvs_p": "p.Phe304Phe",
          "transcript": "NM_001425336.1",
          "protein_id": "NP_001412265.1",
          "transcript_support_level": null,
          "aa_start": 304,
          "aa_end": null,
          "aa_length": 328,
          "cds_start": 912,
          "cds_end": null,
          "cds_length": 987,
          "cdna_start": 1140,
          "cdna_end": null,
          "cdna_length": 2655,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": "F",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.897C>T",
          "hgvs_p": "p.Phe299Phe",
          "transcript": "NM_001191060.2",
          "protein_id": "NP_001177989.1",
          "transcript_support_level": null,
          "aa_start": 299,
          "aa_end": null,
          "aa_length": 323,
          "cds_start": 897,
          "cds_end": null,
          "cds_length": 972,
          "cdna_start": 1447,
          "cdna_end": null,
          "cdna_length": 2962,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": "F",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.897C>T",
          "hgvs_p": "p.Phe299Phe",
          "transcript": "NM_001425337.1",
          "protein_id": "NP_001412266.1",
          "transcript_support_level": null,
          "aa_start": 299,
          "aa_end": null,
          "aa_length": 323,
          "cds_start": 897,
          "cds_end": null,
          "cds_length": 972,
          "cdna_start": 1153,
          "cdna_end": null,
          "cdna_length": 2668,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": "F",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.897C>T",
          "hgvs_p": "p.Phe299Phe",
          "transcript": "NM_001425338.1",
          "protein_id": "NP_001412267.1",
          "transcript_support_level": null,
          "aa_start": 299,
          "aa_end": null,
          "aa_length": 323,
          "cds_start": 897,
          "cds_end": null,
          "cds_length": 972,
          "cdna_start": 1450,
          "cdna_end": null,
          "cdna_length": 2965,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": "F",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.897C>T",
          "hgvs_p": "p.Phe299Phe",
          "transcript": "NM_001425339.1",
          "protein_id": "NP_001412268.1",
          "transcript_support_level": null,
          "aa_start": 299,
          "aa_end": null,
          "aa_length": 323,
          "cds_start": 897,
          "cds_end": null,
          "cds_length": 972,
          "cdna_start": 1120,
          "cdna_end": null,
          "cdna_length": 2635,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": "F",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.897C>T",
          "hgvs_p": "p.Phe299Phe",
          "transcript": "NM_024698.6",
          "protein_id": "NP_078974.1",
          "transcript_support_level": null,
          "aa_start": 299,
          "aa_end": null,
          "aa_length": 323,
          "cds_start": 897,
          "cds_end": null,
          "cds_length": 972,
          "cdna_start": 1256,
          "cdna_end": null,
          "cdna_length": 2771,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": "F",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.897C>T",
          "hgvs_p": "p.Phe299Phe",
          "transcript": "ENST00000531214.5",
          "protein_id": "ENSP00000437236.1",
          "transcript_support_level": 2,
          "aa_start": 299,
          "aa_end": null,
          "aa_length": 323,
          "cds_start": 897,
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          "cdna_start": 1444,
          "cdna_end": null,
          "cdna_length": 1790,
          "mane_select": null,
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": "F",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 10,
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          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.894C>T",
          "hgvs_p": "p.Phe298Phe",
          "transcript": "NM_001425340.1",
          "protein_id": "NP_001412269.1",
          "transcript_support_level": null,
          "aa_start": 298,
          "aa_end": null,
          "aa_length": 322,
          "cds_start": 894,
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          "cds_length": 969,
          "cdna_start": 1122,
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          "mane_select": null,
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          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": "F",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.885C>T",
          "hgvs_p": "p.Phe295Phe",
          "transcript": "NM_001425341.1",
          "protein_id": "NP_001412270.1",
          "transcript_support_level": null,
          "aa_start": 295,
          "aa_end": null,
          "aa_length": 319,
          "cds_start": 885,
          "cds_end": null,
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          "cdna_start": 1113,
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          "cdna_length": 2628,
          "mane_select": null,
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": "F",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 10,
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          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.579C>T",
          "hgvs_p": "p.Phe193Phe",
          "transcript": "NM_001425344.1",
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          "aa_start": 193,
          "aa_end": null,
          "aa_length": 217,
          "cds_start": 579,
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          "cdna_start": 1130,
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          "mane_select": null,
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": "F",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.897C>T",
          "hgvs_p": "p.Phe299Phe",
          "transcript": "XM_011520370.3",
          "protein_id": "XP_011518672.1",
          "transcript_support_level": null,
          "aa_start": 299,
          "aa_end": null,
          "aa_length": 323,
          "cds_start": 897,
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          "cdna_start": 1251,
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          "cdna_length": 2766,
          "mane_select": null,
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": "F",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
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          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.897C>T",
          "hgvs_p": "p.Phe299Phe",
          "transcript": "XM_024448687.2",
          "protein_id": "XP_024304455.1",
          "transcript_support_level": null,
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          "aa_end": null,
          "aa_length": 323,
          "cds_start": 897,
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          "cdna_start": 1179,
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          "mane_select": null,
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
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          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 10,
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          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.897C>T",
          "hgvs_p": "p.Phe299Phe",
          "transcript": "XM_024448688.2",
          "protein_id": "XP_024304456.1",
          "transcript_support_level": null,
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": "F",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
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          "gene_symbol": "SLC25A22",
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          "hgvs_c": "c.897C>T",
          "hgvs_p": "p.Phe299Phe",
          "transcript": "XM_024448689.2",
          "protein_id": "XP_024304457.1",
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
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          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.897C>T",
          "hgvs_p": "p.Phe299Phe",
          "transcript": "XM_047427599.1",
          "protein_id": "XP_047283555.1",
          "transcript_support_level": null,
          "aa_start": 299,
          "aa_end": null,
          "aa_length": 323,
          "cds_start": 897,
          "cds_end": null,
          "cds_length": 972,
          "cdna_start": 3074,
          "cdna_end": null,
          "cdna_length": 4589,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": "F",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 11,
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        },
        {
          "aa_ref": "F",
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          "protein_coding": true,
          "strand": false,
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          "exon_rank": 10,
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          "exon_count": 10,
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          "cds_start": 897,
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          "cdna_start": 1739,
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          "cdna_length": 3254,
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        },
        {
          "aa_ref": null,
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          "protein_coding": true,
          "strand": false,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 10,
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          "exon_count": 10,
          "intron_rank": null,
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          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.*41C>T",
          "hgvs_p": null,
          "transcript": "NM_001425342.1",
          "protein_id": "NP_001412271.1",
          "transcript_support_level": null,
          "aa_start": null,
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          "aa_length": 283,
          "cds_start": -4,
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          "cds_length": 852,
          "cdna_start": null,
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        },
        {
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          "protein_coding": true,
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          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 10,
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          "exon_count": 10,
          "intron_rank": null,
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          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.*77C>T",
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          "transcript": "NM_001425343.1",
          "protein_id": "NP_001412272.1",
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          "aa_length": 270,
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          "cdna_start": null,
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        },
        {
          "aa_ref": null,
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          "protein_coding": true,
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          "consequences": [
            "downstream_gene_variant"
          ],
          "exon_rank": null,
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          "exon_count": 9,
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          "gene_symbol": "SLC25A22",
          "gene_hgnc_id": 19954,
          "hgvs_c": "c.*33C>T",
          "hgvs_p": null,
          "transcript": "ENST00000481290.5",
          "protein_id": "ENSP00000431829.2",
          "transcript_support_level": 5,
          "aa_start": null,
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          "aa_length": 312,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 939,
          "cdna_start": null,
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          "cdna_length": 1108,
          "mane_select": null,
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          "biotype": null,
          "feature": null
        }
      ],
      "gene_symbol": "SLC25A22",
      "gene_hgnc_id": 19954,
      "dbsnp": "rs7124179",
      "frequency_reference_population": 0.00004847364,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 78,
      "gnomad_exomes_af": 0.0000398145,
      "gnomad_genomes_af": 0.000131261,
      "gnomad_exomes_ac": 58,
      "gnomad_genomes_ac": 20,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": -0.6700000166893005,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "BayesDel_noAF",
      "splice_score_selected": 0.03999999910593033,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": null,
      "revel_prediction": null,
      "alphamissense_score": null,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.67,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": -0.626,
      "phylop100way_prediction": "Benign",
      "spliceai_max_score": 0.04,
      "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": -10,
      "acmg_classification": "Benign",
      "acmg_criteria": "BP4_Strong,BP6,BP7,BS1",
      "acmg_by_gene": [
        {
          "score": -10,
          "benign_score": 10,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Strong",
            "BP6",
            "BP7",
            "BS1"
          ],
          "verdict": "Benign",
          "transcript": "ENST00000628067.3",
          "gene_symbol": "SLC25A22",
          "hgnc_id": 19954,
          "effects": [
            "synonymous_variant"
          ],
          "inheritance_mode": "AR,AD",
          "hgvs_c": "c.897C>T",
          "hgvs_p": "p.Phe299Phe"
        }
      ],
      "clinvar_disease": "Developmental and epileptic encephalopathy,Early myoclonic encephalopathy,SLC25A22-related disorder,not provided",
      "clinvar_classification": "Conflicting classifications of pathogenicity",
      "clinvar_review_status": "criteria provided, conflicting classifications",
      "clinvar_submissions_summary": "US:2 LB:1 B:1",
      "phenotype_combined": "Early myoclonic encephalopathy|Developmental and epileptic encephalopathy|not provided|SLC25A22-related disorder",
      "pathogenicity_classification_combined": "Conflicting classifications of pathogenicity",
      "custom_annotations": null
    }
  ],
  "message": null
}