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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: 1-42748232-T-G (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=1&pos=42748232&ref=T&alt=G&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "1",
      "pos": 42748232,
      "ref": "T",
      "alt": "G",
      "effect": "missense_variant",
      "transcript": "NM_001243246.2",
      "consequences": [
        {
          "aa_ref": "K",
          "aa_alt": "N",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "P3H1",
          "gene_hgnc_id": 19316,
          "hgvs_c": "c.1806A>C",
          "hgvs_p": "p.Lys602Asn",
          "transcript": "NM_022356.4",
          "protein_id": "NP_071751.3",
          "transcript_support_level": null,
          "aa_start": 602,
          "aa_end": null,
          "aa_length": 736,
          "cds_start": 1806,
          "cds_end": null,
          "cds_length": 2211,
          "cdna_start": 1863,
          "cdna_end": null,
          "cdna_length": 2591,
          "mane_select": "ENST00000296388.10",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_022356.4"
        },
        {
          "aa_ref": "K",
          "aa_alt": "N",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "P3H1",
          "gene_hgnc_id": 19316,
          "hgvs_c": "c.1806A>C",
          "hgvs_p": "p.Lys602Asn",
          "transcript": "ENST00000296388.10",
          "protein_id": "ENSP00000296388.5",
          "transcript_support_level": 1,
          "aa_start": 602,
          "aa_end": null,
          "aa_length": 736,
          "cds_start": 1806,
          "cds_end": null,
          "cds_length": 2211,
          "cdna_start": 1863,
          "cdna_end": null,
          "cdna_length": 2591,
          "mane_select": "NM_022356.4",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000296388.10"
        },
        {
          "aa_ref": "K",
          "aa_alt": "N",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "P3H1",
          "gene_hgnc_id": 19316,
          "hgvs_c": "c.1806A>C",
          "hgvs_p": "p.Lys602Asn",
          "transcript": "ENST00000397054.7",
          "protein_id": "ENSP00000380245.3",
          "transcript_support_level": 1,
          "aa_start": 602,
          "aa_end": null,
          "aa_length": 697,
          "cds_start": 1806,
          "cds_end": null,
          "cds_length": 2094,
          "cdna_start": 1919,
          "cdna_end": null,
          "cdna_length": 2705,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000397054.7"
        },
        {
          "aa_ref": "K",
          "aa_alt": "N",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "P3H1",
          "gene_hgnc_id": 19316,
          "hgvs_c": "c.2130A>C",
          "hgvs_p": "p.Lys710Asn",
          "transcript": "ENST00000907902.1",
          "protein_id": "ENSP00000577961.1",
          "transcript_support_level": null,
          "aa_start": 710,
          "aa_end": null,
          "aa_length": 844,
          "cds_start": 2130,
          "cds_end": null,
          "cds_length": 2535,
          "cdna_start": 2189,
          "cdna_end": null,
          "cdna_length": 2916,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000907902.1"
        },
        {
          "aa_ref": "K",
          "aa_alt": "N",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "P3H1",
          "gene_hgnc_id": 19316,
          "hgvs_c": "c.1806A>C",
          "hgvs_p": "p.Lys602Asn",
          "transcript": "NM_001243246.2",
          "protein_id": "NP_001230175.1",
          "transcript_support_level": null,
          "aa_start": 602,
          "aa_end": null,
          "aa_length": 804,
          "cds_start": 1806,
          "cds_end": null,
          "cds_length": 2415,
          "cdna_start": 1863,
          "cdna_end": null,
          "cdna_length": 3010,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001243246.2"
        },
        {
          "aa_ref": "K",
          "aa_alt": "N",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "P3H1",
          "gene_hgnc_id": 19316,
          "hgvs_c": "c.1806A>C",
          "hgvs_p": "p.Lys602Asn",
          "transcript": "ENST00000236040.8",
          "protein_id": "ENSP00000236040.4",
          "transcript_support_level": 2,
          "aa_start": 602,
          "aa_end": null,
          "aa_length": 804,
          "cds_start": 1806,
          "cds_end": null,
          "cds_length": 2415,
          "cdna_start": 1847,
          "cdna_end": null,
          "cdna_length": 2993,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000236040.8"
        },
        {
          "aa_ref": "K",
          "aa_alt": "N",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "P3H1",
          "gene_hgnc_id": 19316,
          "hgvs_c": "c.1806A>C",
          "hgvs_p": "p.Lys602Asn",
          "transcript": "ENST00000907901.1",
          "protein_id": "ENSP00000577960.1",
          "transcript_support_level": null,
          "aa_start": 602,
          "aa_end": null,
          "aa_length": 803,
          "cds_start": 1806,
          "cds_end": null,
          "cds_length": 2412,
          "cdna_start": 1896,
          "cdna_end": null,
          "cdna_length": 2824,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000907901.1"
        },
        {
          "aa_ref": "K",
          "aa_alt": "N",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "P3H1",
          "gene_hgnc_id": 19316,
          "hgvs_c": "c.1776A>C",
          "hgvs_p": "p.Lys592Asn",
          "transcript": "ENST00000964923.1",
          "protein_id": "ENSP00000634982.1",
          "transcript_support_level": null,
          "aa_start": 592,
          "aa_end": null,
          "aa_length": 793,
          "cds_start": 1776,
          "cds_end": null,
          "cds_length": 2382,
          "cdna_start": 1854,
          "cdna_end": null,
          "cdna_length": 2783,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000964923.1"
        },
        {
          "aa_ref": "K",
          "aa_alt": "N",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "P3H1",
          "gene_hgnc_id": 19316,
          "hgvs_c": "c.1806A>C",
          "hgvs_p": "p.Lys602Asn",
          "transcript": "ENST00000928449.1",
          "protein_id": "ENSP00000598508.1",
          "transcript_support_level": null,
          "aa_start": 602,
          "aa_end": null,
          "aa_length": 770,
          "cds_start": 1806,
          "cds_end": null,
          "cds_length": 2313,
          "cdna_start": 1867,
          "cdna_end": null,
          "cdna_length": 2697,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000928449.1"
        },
        {
          "aa_ref": "K",
          "aa_alt": "N",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "P3H1",
          "gene_hgnc_id": 19316,
          "hgvs_c": "c.1866A>C",
          "hgvs_p": "p.Lys622Asn",
          "transcript": "ENST00000907903.1",
          "protein_id": "ENSP00000577962.1",
          "transcript_support_level": null,
          "aa_start": 622,
          "aa_end": null,
          "aa_length": 756,
          "cds_start": 1866,
          "cds_end": null,
          "cds_length": 2271,
          "cdna_start": 1920,
          "cdna_end": null,
          "cdna_length": 2648,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000907903.1"
        },
        {
          "aa_ref": "K",
          "aa_alt": "N",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "P3H1",
          "gene_hgnc_id": 19316,
          "hgvs_c": "c.1653A>C",
          "hgvs_p": "p.Lys551Asn",
          "transcript": "ENST00000928451.1",
          "protein_id": "ENSP00000598510.1",
          "transcript_support_level": null,
          "aa_start": 551,
          "aa_end": null,
          "aa_length": 752,
          "cds_start": 1653,
          "cds_end": null,
          "cds_length": 2259,
          "cdna_start": 1714,
          "cdna_end": null,
          "cdna_length": 2641,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000928451.1"
        },
        {
          "aa_ref": "K",
          "aa_alt": "N",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "P3H1",
          "gene_hgnc_id": 19316,
          "hgvs_c": "c.1791A>C",
          "hgvs_p": "p.Lys597Asn",
          "transcript": "ENST00000928450.1",
          "protein_id": "ENSP00000598509.1",
          "transcript_support_level": null,
          "aa_start": 597,
          "aa_end": null,
          "aa_length": 731,
          "cds_start": 1791,
          "cds_end": null,
          "cds_length": 2196,
          "cdna_start": 1852,
          "cdna_end": null,
          "cdna_length": 2580,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000928450.1"
        },
        {
          "aa_ref": "K",
          "aa_alt": "N",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "P3H1",
          "gene_hgnc_id": 19316,
          "hgvs_c": "c.1776A>C",
          "hgvs_p": "p.Lys592Asn",
          "transcript": "ENST00000928452.1",
          "protein_id": "ENSP00000598511.1",
          "transcript_support_level": null,
          "aa_start": 592,
          "aa_end": null,
          "aa_length": 726,
          "cds_start": 1776,
          "cds_end": null,
          "cds_length": 2181,
          "cdna_start": 1823,
          "cdna_end": null,
          "cdna_length": 2549,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000928452.1"
        },
        {
          "aa_ref": "K",
          "aa_alt": "N",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "P3H1",
          "gene_hgnc_id": 19316,
          "hgvs_c": "c.1716A>C",
          "hgvs_p": "p.Lys572Asn",
          "transcript": "ENST00000907904.1",
          "protein_id": "ENSP00000577963.1",
          "transcript_support_level": null,
          "aa_start": 572,
          "aa_end": null,
          "aa_length": 706,
          "cds_start": 1716,
          "cds_end": null,
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          "cdna_start": 1740,
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          "cdna_length": 2468,
          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "ENST00000907904.1"
        },
        {
          "aa_ref": "K",
          "aa_alt": "N",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "P3H1",
          "gene_hgnc_id": 19316,
          "hgvs_c": "c.1806A>C",
          "hgvs_p": "p.Lys602Asn",
          "transcript": "NM_001146289.2",
          "protein_id": "NP_001139761.1",
          "transcript_support_level": null,
          "aa_start": 602,
          "aa_end": null,
          "aa_length": 697,
          "cds_start": 1806,
          "cds_end": null,
          "cds_length": 2094,
          "cdna_start": 1863,
          "cdna_end": null,
          "cdna_length": 2610,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001146289.2"
        },
        {
          "aa_ref": "K",
          "aa_alt": "N",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "P3H1",
          "gene_hgnc_id": 19316,
          "hgvs_c": "c.1653A>C",
          "hgvs_p": "p.Lys551Asn",
          "transcript": "ENST00000907905.1",
          "protein_id": "ENSP00000577964.1",
          "transcript_support_level": null,
          "aa_start": 551,
          "aa_end": null,
          "aa_length": 685,
          "cds_start": 1653,
          "cds_end": null,
          "cds_length": 2058,
          "cdna_start": 1671,
          "cdna_end": null,
          "cdna_length": 2399,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000907905.1"
        },
        {
          "aa_ref": "K",
          "aa_alt": "N",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "P3H1",
          "gene_hgnc_id": 19316,
          "hgvs_c": "c.1806A>C",
          "hgvs_p": "p.Lys602Asn",
          "transcript": "XM_047427616.1",
          "protein_id": "XP_047283572.1",
          "transcript_support_level": null,
          "aa_start": 602,
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          "cds_start": 1806,
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          "cdna_start": 1863,
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          "cdna_length": 2792,
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          "biotype": "protein_coding",
          "feature": "XM_047427616.1"
        },
        {
          "aa_ref": "K",
          "aa_alt": "N",
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          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 9,
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          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "P3H1",
          "gene_hgnc_id": 19316,
          "hgvs_c": "c.831A>C",
          "hgvs_p": "p.Lys277Asn",
          "transcript": "XM_047427621.1",
          "protein_id": "XP_047283577.1",
          "transcript_support_level": null,
          "aa_start": 277,
          "aa_end": null,
          "aa_length": 478,
          "cds_start": 831,
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          "cds_length": 1437,
          "cdna_start": 915,
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          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_047427621.1"
        },
        {
          "aa_ref": "K",
          "aa_alt": "N",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "P3H1",
          "gene_hgnc_id": 19316,
          "hgvs_c": "c.828A>C",
          "hgvs_p": "p.Lys276Asn",
          "transcript": "XM_047427626.1",
          "protein_id": "XP_047283582.1",
          "transcript_support_level": null,
          "aa_start": 276,
          "aa_end": null,
          "aa_length": 477,
          "cds_start": 828,
          "cds_end": null,
          "cds_length": 1434,
          "cdna_start": 912,
          "cdna_end": null,
          "cdna_length": 1841,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_047427626.1"
        },
        {
          "aa_ref": "K",
          "aa_alt": "N",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 7,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "P3H1",
          "gene_hgnc_id": 19316,
          "hgvs_c": "c.699A>C",
          "hgvs_p": "p.Lys233Asn",
          "transcript": "XM_047427629.1",
          "protein_id": "XP_047283585.1",
          "transcript_support_level": null,
          "aa_start": 233,
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        {
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          "biotype": "nonsense_mediated_decay",
          "feature": "ENST00000431412.3"
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      ],
      "gene_symbol": "P3H1",
      "gene_hgnc_id": 19316,
      "dbsnp": "rs144336336",
      "frequency_reference_population": 0.0008401893,
      "hom_count_reference_population": 1,
      "allele_count_reference_population": 1356,
      "gnomad_exomes_af": 0.000859955,
      "gnomad_genomes_af": 0.000650383,
      "gnomad_exomes_ac": 1257,
      "gnomad_genomes_ac": 99,
      "gnomad_exomes_homalt": 1,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.27205580472946167,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.376,
      "revel_prediction": "Uncertain_significance",
      "alphamissense_score": 0.9492,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.22,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 0.782,
      "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": -1,
      "acmg_classification": "Likely_benign",
      "acmg_criteria": "BP4",
      "acmg_by_gene": [
        {
          "score": -1,
          "benign_score": 1,
          "pathogenic_score": 0,
          "criteria": [
            "BP4"
          ],
          "verdict": "Likely_benign",
          "transcript": "NM_001243246.2",
          "gene_symbol": "P3H1",
          "hgnc_id": 19316,
          "effects": [
            "missense_variant"
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          "inheritance_mode": "AR,AD",
          "hgvs_c": "c.1806A>C",
          "hgvs_p": "p.Lys602Asn"
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      ],
      "clinvar_disease": " Recessive,Osteogenesis Imperfecta,Osteogenesis imperfecta type 8,P3H1-related disorder,not provided",
      "clinvar_classification": "Uncertain significance",
      "clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
      "clinvar_submissions_summary": "US:8",
      "phenotype_combined": "Osteogenesis Imperfecta, Recessive|not provided|P3H1-related disorder|Osteogenesis imperfecta type 8",
      "pathogenicity_classification_combined": "Uncertain significance",
      "custom_annotations": null
    }
  ],
  "message": null
}
For research and educational, non-commercial use only. Not for clinical or diagnostic use. GeneBe does not provide medical advice. Data use for AI modeling is prohibited: if used, the cost is $0.001 per byte of downloaded uncompressed data.