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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: 17-19381009-A-G (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=17&pos=19381009&ref=A&alt=G&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "17",
      "pos": 19381009,
      "ref": "A",
      "alt": "G",
      "effect": "missense_variant",
      "transcript": "NM_002749.4",
      "consequences": [
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MAPK7",
          "gene_hgnc_id": 6880,
          "hgvs_c": "c.800A>G",
          "hgvs_p": "p.Tyr267Cys",
          "transcript": "NM_002749.4",
          "protein_id": "NP_002740.2",
          "transcript_support_level": null,
          "aa_start": 267,
          "aa_end": null,
          "aa_length": 816,
          "cds_start": 800,
          "cds_end": null,
          "cds_length": 2451,
          "cdna_start": 938,
          "cdna_end": null,
          "cdna_length": 2902,
          "mane_select": "ENST00000395604.8",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MAPK7",
          "gene_hgnc_id": 6880,
          "hgvs_c": "c.800A>G",
          "hgvs_p": "p.Tyr267Cys",
          "transcript": "ENST00000395604.8",
          "protein_id": "ENSP00000378968.3",
          "transcript_support_level": 1,
          "aa_start": 267,
          "aa_end": null,
          "aa_length": 816,
          "cds_start": 800,
          "cds_end": null,
          "cds_length": 2451,
          "cdna_start": 938,
          "cdna_end": null,
          "cdna_length": 2902,
          "mane_select": "NM_002749.4",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MAPK7",
          "gene_hgnc_id": 6880,
          "hgvs_c": "c.800A>G",
          "hgvs_p": "p.Tyr267Cys",
          "transcript": "ENST00000308406.9",
          "protein_id": "ENSP00000311005.5",
          "transcript_support_level": 1,
          "aa_start": 267,
          "aa_end": null,
          "aa_length": 816,
          "cds_start": 800,
          "cds_end": null,
          "cds_length": 2451,
          "cdna_start": 1186,
          "cdna_end": null,
          "cdna_length": 3149,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MAPK7",
          "gene_hgnc_id": 6880,
          "hgvs_c": "c.800A>G",
          "hgvs_p": "p.Tyr267Cys",
          "transcript": "ENST00000395602.8",
          "protein_id": "ENSP00000378966.4",
          "transcript_support_level": 1,
          "aa_start": 267,
          "aa_end": null,
          "aa_length": 816,
          "cds_start": 800,
          "cds_end": null,
          "cds_length": 2451,
          "cdna_start": 1095,
          "cdna_end": null,
          "cdna_length": 3059,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MAPK7",
          "gene_hgnc_id": 6880,
          "hgvs_c": "c.383A>G",
          "hgvs_p": "p.Tyr128Cys",
          "transcript": "ENST00000299612.11",
          "protein_id": "ENSP00000299612.7",
          "transcript_support_level": 1,
          "aa_start": 128,
          "aa_end": null,
          "aa_length": 677,
          "cds_start": 383,
          "cds_end": null,
          "cds_length": 2034,
          "cdna_start": 751,
          "cdna_end": null,
          "cdna_length": 2715,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MAPK7",
          "gene_hgnc_id": 6880,
          "hgvs_c": "c.800A>G",
          "hgvs_p": "p.Tyr267Cys",
          "transcript": "NM_139033.3",
          "protein_id": "NP_620602.2",
          "transcript_support_level": null,
          "aa_start": 267,
          "aa_end": null,
          "aa_length": 816,
          "cds_start": 800,
          "cds_end": null,
          "cds_length": 2451,
          "cdna_start": 1157,
          "cdna_end": null,
          "cdna_length": 3121,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MAPK7",
          "gene_hgnc_id": 6880,
          "hgvs_c": "c.800A>G",
          "hgvs_p": "p.Tyr267Cys",
          "transcript": "NM_139034.3",
          "protein_id": "NP_620603.2",
          "transcript_support_level": null,
          "aa_start": 267,
          "aa_end": null,
          "aa_length": 816,
          "cds_start": 800,
          "cds_end": null,
          "cds_length": 2451,
          "cdna_start": 850,
          "cdna_end": null,
          "cdna_length": 2814,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MAPK7",
          "gene_hgnc_id": 6880,
          "hgvs_c": "c.383A>G",
          "hgvs_p": "p.Tyr128Cys",
          "transcript": "NM_139032.3",
          "protein_id": "NP_620601.1",
          "transcript_support_level": null,
          "aa_start": 128,
          "aa_end": null,
          "aa_length": 677,
          "cds_start": 383,
          "cds_end": null,
          "cds_length": 2034,
          "cdna_start": 754,
          "cdna_end": null,
          "cdna_length": 2718,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 2,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MAPK7",
          "gene_hgnc_id": 6880,
          "hgvs_c": "c.383A>G",
          "hgvs_p": "p.Tyr128Cys",
          "transcript": "ENST00000482850.1",
          "protein_id": "ENSP00000458146.1",
          "transcript_support_level": 2,
          "aa_start": 128,
          "aa_end": null,
          "aa_length": 194,
          "cds_start": 383,
          "cds_end": null,
          "cds_length": 587,
          "cdna_start": 436,
          "cdna_end": null,
          "cdna_length": 640,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MAPK7",
          "gene_hgnc_id": 6880,
          "hgvs_c": "c.818A>G",
          "hgvs_p": "p.Tyr273Cys",
          "transcript": "XM_006721557.4",
          "protein_id": "XP_006721620.1",
          "transcript_support_level": null,
          "aa_start": 273,
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          "aa_length": 822,
          "cds_start": 818,
          "cds_end": null,
          "cds_length": 2469,
          "cdna_start": 956,
          "cdna_end": null,
          "cdna_length": 2920,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
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          "protein_coding": true,
          "strand": true,
          "consequences": [
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          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
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          "gene_symbol": "MAPK7",
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          "hgvs_c": "c.818A>G",
          "hgvs_p": "p.Tyr273Cys",
          "transcript": "XM_006721558.4",
          "protein_id": "XP_006721621.1",
          "transcript_support_level": null,
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          "cds_start": 818,
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          "cdna_start": 1175,
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          "cdna_length": 3139,
          "mane_select": null,
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          "biotype": null,
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        },
        {
          "aa_ref": "Y",
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          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 5,
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          "exon_count": 8,
          "intron_rank": null,
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          "gene_symbol": "MAPK7",
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        {
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          "strand": true,
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          "gene_symbol": "MAPK7",
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          "hgvs_c": "c.818A>G",
          "hgvs_p": "p.Tyr273Cys",
          "transcript": "XM_047436401.1",
          "protein_id": "XP_047292357.1",
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        {
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          "strand": true,
          "consequences": [
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          ],
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          "intron_rank": null,
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          "gene_symbol": "MAPK7",
          "gene_hgnc_id": 6880,
          "hgvs_c": "c.818A>G",
          "hgvs_p": "p.Tyr273Cys",
          "transcript": "XM_047436402.1",
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        {
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        {
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          "strand": true,
          "consequences": [
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          ],
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          "exon_count": 6,
          "intron_rank": null,
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          "gene_symbol": "MAPK7",
          "gene_hgnc_id": 6880,
          "hgvs_c": "c.800A>G",
          "hgvs_p": "p.Tyr267Cys",
          "transcript": "XM_047436404.1",
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        {
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          "intron_rank": null,
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          "gene_symbol": "MAPK7",
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          "hgvs_c": "c.800A>G",
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        {
          "aa_ref": "Y",
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          "gene_symbol": "MAPK7",
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        },
        {
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          "strand": true,
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          ],
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          "intron_rank": null,
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          "gene_symbol": "MAPK7",
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        },
        {
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          "protein_coding": true,
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          ],
          "exon_rank": 2,
          "exon_rank_end": null,
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          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MAPK7",
          "gene_hgnc_id": 6880,
          "hgvs_c": "c.383A>G",
          "hgvs_p": "p.Tyr128Cys",
          "transcript": "XM_011523957.4",
          "protein_id": "XP_011522259.1",
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          "aa_end": null,
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          "cdna_start": 447,
          "cdna_end": null,
          "cdna_length": 2411,
          "mane_select": null,
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
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        },
        {
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          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
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          "exon_rank": 1,
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          "exon_count": 3,
          "intron_rank": null,
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          "gene_symbol": "MAPK7",
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        },
        {
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          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
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          "exon_rank": 2,
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          "exon_count": 2,
          "intron_rank": null,
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          "gene_symbol": "MAPK7",
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          "hgvs_c": "n.672A>G",
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          "transcript": "ENST00000572716.1",
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          "cds_length": null,
          "cdna_start": null,
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        },
        {
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          "protein_coding": false,
          "strand": true,
          "consequences": [
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          ],
          "exon_rank": null,
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          "exon_count": 3,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "MAPK7",
          "gene_hgnc_id": 6880,
          "hgvs_c": "n.304-1804A>G",
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          "transcript": "ENST00000571657.5",
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          "transcript_support_level": 3,
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          "cdna_start": null,
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          "cdna_length": 699,
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        },
        {
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          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
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          ],
          "exon_rank": null,
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          "exon_count": 2,
          "intron_rank": 1,
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          "gene_symbol": "MAPK7",
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          "hgvs_c": "n.111-772A>G",
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          "transcript": "ENST00000573417.1",
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          "transcript_support_level": 5,
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          "cdna_start": null,
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          "cdna_length": 418,
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        },
        {
          "aa_ref": null,
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          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "downstream_gene_variant"
          ],
          "exon_rank": null,
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          "exon_count": 4,
          "intron_rank": null,
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          "gene_symbol": "MAPK7",
          "gene_hgnc_id": 6880,
          "hgvs_c": "c.*76A>G",
          "hgvs_p": null,
          "transcript": "ENST00000443215.5",
          "protein_id": "ENSP00000412902.1",
          "transcript_support_level": 3,
          "aa_start": null,
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          "aa_length": 240,
          "cds_start": -4,
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          "cds_length": 724,
          "cdna_start": null,
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          "cdna_length": 850,
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
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          "protein_coding": false,
          "strand": true,
          "consequences": [
            "downstream_gene_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MAPK7",
          "gene_hgnc_id": 6880,
          "hgvs_c": "n.*570A>G",
          "hgvs_p": null,
          "transcript": "ENST00000581260.5",
          "protein_id": "ENSP00000462804.2",
          "transcript_support_level": 3,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 773,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        }
      ],
      "gene_symbol": "MAPK7",
      "gene_hgnc_id": 6880,
      "dbsnp": "rs201779270",
      "frequency_reference_population": 0.000007434557,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 12,
      "gnomad_exomes_af": 0.00000752476,
      "gnomad_genomes_af": 0.0000065684,
      "gnomad_exomes_ac": 11,
      "gnomad_genomes_ac": 1,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.8115789890289307,
      "computational_prediction_selected": "Pathogenic",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.646,
      "revel_prediction": "Pathogenic",
      "alphamissense_score": 0.9588,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": 0.04,
      "bayesdelnoaf_prediction": "Uncertain_significance",
      "phylop100way_score": 7.281,
      "phylop100way_prediction": "Uncertain_significance",
      "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": 0,
      "acmg_classification": "Uncertain_significance",
      "acmg_criteria": "PP3,BS2_Supporting",
      "acmg_by_gene": [
        {
          "score": 0,
          "benign_score": 1,
          "pathogenic_score": 1,
          "criteria": [
            "PP3",
            "BS2_Supporting"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "NM_002749.4",
          "gene_symbol": "MAPK7",
          "hgnc_id": 6880,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AD",
          "hgvs_c": "c.800A>G",
          "hgvs_p": "p.Tyr267Cys"
        }
      ],
      "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
}