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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: 1-94926849-C-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=1&pos=94926849&ref=C&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "1",
      "pos": 94926849,
      "ref": "C",
      "alt": "T",
      "effect": "missense_variant",
      "transcript": "NM_001839.5",
      "consequences": [
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CNN3",
          "gene_hgnc_id": 2157,
          "hgvs_c": "c.46G>A",
          "hgvs_p": "p.Val16Ile",
          "transcript": "NM_001839.5",
          "protein_id": "NP_001830.1",
          "transcript_support_level": null,
          "aa_start": 16,
          "aa_end": null,
          "aa_length": 329,
          "cds_start": 46,
          "cds_end": null,
          "cds_length": 990,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000370206.9",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001839.5"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CNN3",
          "gene_hgnc_id": 2157,
          "hgvs_c": "c.46G>A",
          "hgvs_p": "p.Val16Ile",
          "transcript": "ENST00000370206.9",
          "protein_id": "ENSP00000359225.4",
          "transcript_support_level": 1,
          "aa_start": 16,
          "aa_end": null,
          "aa_length": 329,
          "cds_start": 46,
          "cds_end": null,
          "cds_length": 990,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_001839.5",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000370206.9"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CNN3",
          "gene_hgnc_id": 2157,
          "hgvs_c": "c.46G>A",
          "hgvs_p": "p.Val16Ile",
          "transcript": "ENST00000885995.1",
          "protein_id": "ENSP00000556054.1",
          "transcript_support_level": null,
          "aa_start": 16,
          "aa_end": null,
          "aa_length": 329,
          "cds_start": 46,
          "cds_end": null,
          "cds_length": 990,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000885995.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CNN3",
          "gene_hgnc_id": 2157,
          "hgvs_c": "c.46G>A",
          "hgvs_p": "p.Val16Ile",
          "transcript": "ENST00000939684.1",
          "protein_id": "ENSP00000609743.1",
          "transcript_support_level": null,
          "aa_start": 16,
          "aa_end": null,
          "aa_length": 327,
          "cds_start": 46,
          "cds_end": null,
          "cds_length": 984,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000939684.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CNN3",
          "gene_hgnc_id": 2157,
          "hgvs_c": "c.46G>A",
          "hgvs_p": "p.Val16Ile",
          "transcript": "ENST00000939685.1",
          "protein_id": "ENSP00000609744.1",
          "transcript_support_level": null,
          "aa_start": 16,
          "aa_end": null,
          "aa_length": 289,
          "cds_start": 46,
          "cds_end": null,
          "cds_length": 870,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000939685.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CNN3",
          "gene_hgnc_id": 2157,
          "hgvs_c": "c.46G>A",
          "hgvs_p": "p.Val16Ile",
          "transcript": "NM_001286055.2",
          "protein_id": "NP_001272984.1",
          "transcript_support_level": null,
          "aa_start": 16,
          "aa_end": null,
          "aa_length": 283,
          "cds_start": 46,
          "cds_end": null,
          "cds_length": 852,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001286055.2"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CNN3",
          "gene_hgnc_id": 2157,
          "hgvs_c": "c.46G>A",
          "hgvs_p": "p.Val16Ile",
          "transcript": "ENST00000394202.8",
          "protein_id": "ENSP00000377752.4",
          "transcript_support_level": 2,
          "aa_start": 16,
          "aa_end": null,
          "aa_length": 283,
          "cds_start": 46,
          "cds_end": null,
          "cds_length": 852,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000394202.8"
        },
        {
          "aa_ref": "V",
          "aa_alt": "I",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CNN3",
          "gene_hgnc_id": 2157,
          "hgvs_c": "c.46G>A",
          "hgvs_p": "p.Val16Ile",
          "transcript": "ENST00000885996.1",
          "protein_id": "ENSP00000556055.1",
          "transcript_support_level": null,
          "aa_start": 16,
          "aa_end": null,
          "aa_length": 262,
          "cds_start": 46,
          "cds_end": null,
          "cds_length": 789,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000885996.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "CNN3-DT",
          "gene_hgnc_id": 54176,
          "hgvs_c": "n.360+109C>T",
          "hgvs_p": null,
          "transcript": "ENST00000736279.1",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": null,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "pseudogene",
          "feature": "ENST00000736279.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "CNN3-DT",
          "gene_hgnc_id": 54176,
          "hgvs_c": "n.287+109C>T",
          "hgvs_p": null,
          "transcript": "ENST00000736280.1",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": null,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "pseudogene",
          "feature": "ENST00000736280.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 3,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "CNN3-DT",
          "gene_hgnc_id": 54176,
          "hgvs_c": "n.289+109C>T",
          "hgvs_p": null,
          "transcript": "ENST00000736281.1",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": null,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "pseudogene",
          "feature": "ENST00000736281.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 3,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "CNN3-DT",
          "gene_hgnc_id": 54176,
          "hgvs_c": "n.238+109C>T",
          "hgvs_p": null,
          "transcript": "ENST00000736282.1",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": null,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "pseudogene",
          "feature": "ENST00000736282.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
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          "exon_count": 5,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "CNN3-DT",
          "gene_hgnc_id": 54176,
          "hgvs_c": "n.221+109C>T",
          "hgvs_p": null,
          "transcript": "ENST00000736283.1",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": 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": "ENST00000736283.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "CNN3-DT",
          "gene_hgnc_id": 54176,
          "hgvs_c": "n.220+109C>T",
          "hgvs_p": null,
          "transcript": "ENST00000736284.1",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": null,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "pseudogene",
          "feature": "ENST00000736284.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
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          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": 1,
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          "gene_symbol": "CNN3-DT",
          "gene_hgnc_id": 54176,
          "hgvs_c": "n.219+109C>T",
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          "transcript": "ENST00000736285.1",
          "protein_id": null,
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          "cds_start": null,
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          "mane_select": null,
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          "biotype": "pseudogene",
          "feature": "ENST00000736285.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 3,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "CNN3-DT",
          "gene_hgnc_id": 54176,
          "hgvs_c": "n.215+109C>T",
          "hgvs_p": null,
          "transcript": "ENST00000736286.1",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": 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": "ENST00000736286.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
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          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 3,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "CNN3-DT",
          "gene_hgnc_id": 54176,
          "hgvs_c": "n.219+109C>T",
          "hgvs_p": null,
          "transcript": "ENST00000736287.1",
          "protein_id": null,
          "transcript_support_level": null,
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          "cds_start": null,
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          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "pseudogene",
          "feature": "ENST00000736287.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
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          "exon_count": 3,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "CNN3-DT",
          "gene_hgnc_id": 54176,
          "hgvs_c": "n.215+109C>T",
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          "transcript": "ENST00000736288.1",
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          "biotype": "pseudogene",
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        },
        {
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          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
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          "exon_count": 3,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "CNN3-DT",
          "gene_hgnc_id": 54176,
          "hgvs_c": "n.215+109C>T",
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          "transcript": "ENST00000736289.1",
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          "cdna_start": null,
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          "biotype": "pseudogene",
          "feature": "ENST00000736289.1"
        },
        {
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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": 5,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "CNN3-DT",
          "gene_hgnc_id": 54176,
          "hgvs_c": "n.215+109C>T",
          "hgvs_p": null,
          "transcript": "ENST00000736290.1",
          "protein_id": null,
          "transcript_support_level": null,
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          "aa_length": null,
          "cds_start": null,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "pseudogene",
          "feature": "ENST00000736290.1"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "CNN3-DT",
          "gene_hgnc_id": 54176,
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        {
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          "biotype": "pseudogene",
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      ],
      "gene_symbol": "CNN3",
      "gene_hgnc_id": 2157,
      "dbsnp": "rs772876995",
      "frequency_reference_population": 0.000006207718,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 10,
      "gnomad_exomes_af": 0.00000616947,
      "gnomad_genomes_af": 0.00000657454,
      "gnomad_exomes_ac": 9,
      "gnomad_genomes_ac": 1,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.2561773657798767,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.215,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.4777,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.41,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 2.541,
      "phylop100way_prediction": "Benign",
      "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": -6,
      "acmg_classification": "Likely_benign",
      "acmg_criteria": "BP4_Moderate,BS2",
      "acmg_by_gene": [
        {
          "score": -6,
          "benign_score": 6,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Moderate",
            "BS2"
          ],
          "verdict": "Likely_benign",
          "transcript": "NM_001839.5",
          "gene_symbol": "CNN3",
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          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AD",
          "hgvs_c": "c.46G>A",
          "hgvs_p": "p.Val16Ile"
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        {
          "score": 0,
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          "pathogenic_score": 2,
          "criteria": [
            "PM2",
            "BP4_Moderate"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "NR_168376.1",
          "gene_symbol": "CNN3-DT",
          "hgnc_id": 54176,
          "effects": [
            "intron_variant"
          ],
          "inheritance_mode": "",
          "hgvs_c": "n.381+109C>T",
          "hgvs_p": null
        }
      ],
      "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
}