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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: 3-49101424-C-CGGGAACCGGGTACGTACCT (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=3&pos=49101424&ref=C&alt=CGGGAACCGGGTACGTACCT&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "3",
      "pos": 49101424,
      "ref": "C",
      "alt": "CGGGAACCGGGTACGTACCT",
      "effect": "frameshift_variant",
      "transcript": "ENST00000306125.12",
      "consequences": [
        {
          "aa_ref": "P",
          "aa_alt": "PGTYPVP?",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "c.790-2_806dupAGGTACGTACCCGGTTCCC",
          "hgvs_p": "p.Pro270fs",
          "transcript": "NM_005051.3",
          "protein_id": "NP_005042.1",
          "transcript_support_level": null,
          "aa_start": 269,
          "aa_end": null,
          "aa_length": 775,
          "cds_start": 806,
          "cds_end": null,
          "cds_length": 2328,
          "cdna_start": 830,
          "cdna_end": null,
          "cdna_length": 2449,
          "mane_select": "ENST00000306125.12",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "P",
          "aa_alt": "PGTYPVP?",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "c.806_807insAGGTACGTACCCGGTTCCC",
          "hgvs_p": "p.Pro270fs",
          "transcript": "ENST00000306125.12",
          "protein_id": "ENSP00000307567.6",
          "transcript_support_level": 1,
          "aa_start": 269,
          "aa_end": null,
          "aa_length": 775,
          "cds_start": 806,
          "cds_end": null,
          "cds_length": 2328,
          "cdna_start": 830,
          "cdna_end": null,
          "cdna_length": 2449,
          "mane_select": "NM_005051.3",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "P",
          "aa_alt": "PGTYPVP?",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 23,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "c.371_372insAGGTACGTACCCGGTTCCC",
          "hgvs_p": "p.Pro125fs",
          "transcript": "ENST00000464962.6",
          "protein_id": "ENSP00000489011.1",
          "transcript_support_level": 1,
          "aa_start": 124,
          "aa_end": null,
          "aa_length": 630,
          "cds_start": 371,
          "cds_end": null,
          "cds_length": 1893,
          "cdna_start": 750,
          "cdna_end": null,
          "cdna_length": 2362,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "P",
          "aa_alt": "PGTYPVP?",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "c.757-2_773dupAGGTACGTACCCGGTTCCC",
          "hgvs_p": "p.Pro259fs",
          "transcript": "NM_001272073.2",
          "protein_id": "NP_001259002.1",
          "transcript_support_level": null,
          "aa_start": 258,
          "aa_end": null,
          "aa_length": 764,
          "cds_start": 773,
          "cds_end": null,
          "cds_length": 2295,
          "cdna_start": 797,
          "cdna_end": null,
          "cdna_length": 2416,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "P",
          "aa_alt": "PGTYPVP?",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "c.773_774insAGGTACGTACCCGGTTCCC",
          "hgvs_p": "p.Pro259fs",
          "transcript": "ENST00000414533.5",
          "protein_id": "ENSP00000390015.1",
          "transcript_support_level": 2,
          "aa_start": 258,
          "aa_end": null,
          "aa_length": 764,
          "cds_start": 773,
          "cds_end": null,
          "cds_length": 2295,
          "cdna_start": 798,
          "cdna_end": null,
          "cdna_length": 2412,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "P",
          "aa_alt": "PGTYPVP?",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "c.932_933insAGGTACGTACCCGGTTCCC",
          "hgvs_p": "p.Pro312fs",
          "transcript": "ENST00000452739.5",
          "protein_id": "ENSP00000392850.2",
          "transcript_support_level": 5,
          "aa_start": 311,
          "aa_end": null,
          "aa_length": 338,
          "cds_start": 932,
          "cds_end": null,
          "cds_length": 1017,
          "cdna_start": 959,
          "cdna_end": null,
          "cdna_length": 1044,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "P",
          "aa_alt": "PGTYPVP?",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "c.365_366insAGGTACGTACCCGGTTCCC",
          "hgvs_p": "p.Pro123fs",
          "transcript": "ENST00000635541.1",
          "protein_id": "ENSP00000489365.1",
          "transcript_support_level": 3,
          "aa_start": 122,
          "aa_end": null,
          "aa_length": 172,
          "cds_start": 365,
          "cds_end": null,
          "cds_length": 521,
          "cdna_start": 751,
          "cdna_end": null,
          "cdna_length": 907,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "P",
          "aa_alt": "PGTYPVP?",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 23,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "c.790-2_806dupAGGTACGTACCCGGTTCCC",
          "hgvs_p": "p.Pro270fs",
          "transcript": "XM_017006965.3",
          "protein_id": "XP_016862454.2",
          "transcript_support_level": null,
          "aa_start": 269,
          "aa_end": null,
          "aa_length": 733,
          "cds_start": 806,
          "cds_end": null,
          "cds_length": 2202,
          "cdna_start": 830,
          "cdna_end": null,
          "cdna_length": 2323,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "n.*454_*455insAGGTACGTACCCGGTTCCC",
          "hgvs_p": null,
          "transcript": "ENST00000430182.5",
          "protein_id": "ENSP00000389823.1",
          "transcript_support_level": 2,
          "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": 2399,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "n.342_343insAGGTACGTACCCGGTTCCC",
          "hgvs_p": null,
          "transcript": "ENST00000470225.6",
          "protein_id": null,
          "transcript_support_level": 5,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
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          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 691,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
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          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "n.739_740insAGGTACGTACCCGGTTCCC",
          "hgvs_p": null,
          "transcript": "ENST00000470619.6",
          "protein_id": null,
          "transcript_support_level": 4,
          "aa_start": null,
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          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": 876,
          "mane_select": null,
          "mane_plus": null,
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        },
        {
          "aa_ref": null,
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          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
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          "hgvs_c": "n.1103_1104insAGGTACGTACCCGGTTCCC",
          "hgvs_p": null,
          "transcript": "ENST00000482261.7",
          "protein_id": null,
          "transcript_support_level": 5,
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          "cds_start": -4,
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          "cdna_start": null,
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          "cdna_length": 1149,
          "mane_select": null,
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        },
        {
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          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "n.*303_*304insAGGTACGTACCCGGTTCCC",
          "hgvs_p": null,
          "transcript": "ENST00000494767.2",
          "protein_id": "ENSP00000489170.1",
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          "mane_select": null,
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        },
        {
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          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
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          ],
          "exon_rank": 7,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "n.593_594insAGGTACGTACCCGGTTCCC",
          "hgvs_p": null,
          "transcript": "ENST00000494838.6",
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        },
        {
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          ],
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          "intron_rank": null,
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          "hgvs_c": "n.1110_1111insAGGTACGTACCCGGTTCCC",
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        },
        {
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          "strand": false,
          "consequences": [
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          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 23,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "n.*454_*455insAGGTACGTACCCGGTTCCC",
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          "transcript": "ENST00000636018.1",
          "protein_id": "ENSP00000489930.1",
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        },
        {
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          "strand": false,
          "consequences": [
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          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "n.638_639insAGGTACGTACCCGGTTCCC",
          "hgvs_p": null,
          "transcript": "ENST00000636669.1",
          "protein_id": "ENSP00000490664.1",
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        {
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          "consequences": [
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          ],
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          "exon_rank_end": null,
          "exon_count": 20,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "n.646_647insAGGTACGTACCCGGTTCCC",
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        },
        {
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          "consequences": [
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          ],
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          "exon_count": 24,
          "intron_rank": null,
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          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "n.765-2_781dupAGGTACGTACCCGGTTCCC",
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          "transcript": "NR_073590.2",
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          "feature": null
        },
        {
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          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 24,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "n.*454_*455insAGGTACGTACCCGGTTCCC",
          "hgvs_p": null,
          "transcript": "ENST00000430182.5",
          "protein_id": "ENSP00000389823.1",
          "transcript_support_level": 2,
          "aa_start": null,
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          "aa_length": null,
          "cds_start": -4,
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          "cdna_length": 2399,
          "mane_select": null,
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          "feature": null
        },
        {
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          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "n.*303_*304insAGGTACGTACCCGGTTCCC",
          "hgvs_p": null,
          "transcript": "ENST00000494767.2",
          "protein_id": "ENSP00000489170.1",
          "transcript_support_level": 5,
          "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": 1023,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 23,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "n.*454_*455insAGGTACGTACCCGGTTCCC",
          "hgvs_p": null,
          "transcript": "ENST00000636018.1",
          "protein_id": "ENSP00000489930.1",
          "transcript_support_level": 5,
          "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": 2171,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": 9,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "c.789+195_789+196insAGGTACGTACCCGGTTCCC",
          "hgvs_p": null,
          "transcript": "ENST00000635443.1",
          "protein_id": "ENSP00000489154.1",
          "transcript_support_level": 5,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 341,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 1026,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 1053,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "downstream_gene_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "QARS1",
          "gene_hgnc_id": 9751,
          "hgvs_c": "n.*202_*203insAGGTACGTACCCGGTTCCC",
          "hgvs_p": null,
          "transcript": "ENST00000635375.1",
          "protein_id": null,
          "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": 947,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        }
      ],
      "gene_symbol": "QARS1",
      "gene_hgnc_id": 9751,
      "dbsnp": "rs1553752165",
      "frequency_reference_population": null,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 0,
      "gnomad_exomes_af": null,
      "gnomad_genomes_af": null,
      "gnomad_exomes_ac": null,
      "gnomad_genomes_ac": null,
      "gnomad_exomes_homalt": null,
      "gnomad_genomes_homalt": null,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": null,
      "computational_prediction_selected": null,
      "computational_source_selected": null,
      "splice_score_selected": null,
      "splice_prediction_selected": null,
      "splice_source_selected": null,
      "revel_score": null,
      "revel_prediction": null,
      "alphamissense_score": null,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": null,
      "bayesdelnoaf_prediction": null,
      "phylop100way_score": 9.33,
      "phylop100way_prediction": "Pathogenic",
      "spliceai_max_score": null,
      "spliceai_max_prediction": null,
      "dbscsnv_ada_score": null,
      "dbscsnv_ada_prediction": null,
      "apogee2_score": null,
      "apogee2_prediction": null,
      "mitotip_score": null,
      "mitotip_prediction": null,
      "acmg_score": 8,
      "acmg_classification": "Likely_pathogenic",
      "acmg_criteria": "PVS1",
      "acmg_by_gene": [
        {
          "score": 8,
          "benign_score": 0,
          "pathogenic_score": 8,
          "criteria": [
            "PVS1"
          ],
          "verdict": "Likely_pathogenic",
          "transcript": "ENST00000306125.12",
          "gene_symbol": "QARS1",
          "hgnc_id": 9751,
          "effects": [
            "frameshift_variant"
          ],
          "inheritance_mode": "AR",
          "hgvs_c": "c.806_807insAGGTACGTACCCGGTTCCC",
          "hgvs_p": "p.Pro270fs"
        }
      ],
      "clinvar_disease": "Diffuse cerebral and cerebellar atrophy - intractable seizures - progressive microcephaly syndrome",
      "clinvar_classification": "Uncertain significance",
      "clinvar_review_status": "criteria provided, single submitter",
      "clinvar_submissions_summary": "US:1",
      "phenotype_combined": "Diffuse cerebral and cerebellar atrophy - intractable seizures - progressive microcephaly syndrome",
      "pathogenicity_classification_combined": "Uncertain significance",
      "custom_annotations": null
    }
  ],
  "message": null
}