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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: 2-240877608-GC-G (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=2&pos=240877608&ref=GC&alt=G&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "2",
      "pos": 240877608,
      "ref": "GC",
      "alt": "G",
      "effect": "frameshift_variant",
      "transcript": "NM_000030.3",
      "consequences": [
        {
          "aa_ref": "L",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AGXT",
          "gene_hgnc_id": 341,
          "hgvs_c": "c.919delC",
          "hgvs_p": "p.Leu307fs",
          "transcript": "NM_000030.3",
          "protein_id": "NP_000021.1",
          "transcript_support_level": null,
          "aa_start": 307,
          "aa_end": null,
          "aa_length": 392,
          "cds_start": 919,
          "cds_end": null,
          "cds_length": 1179,
          "cdna_start": 961,
          "cdna_end": null,
          "cdna_length": 2900,
          "mane_select": "ENST00000307503.4",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_000030.3"
        },
        {
          "aa_ref": "L",
          "aa_alt": null,
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AGXT",
          "gene_hgnc_id": 341,
          "hgvs_c": "c.919delC",
          "hgvs_p": "p.Leu307fs",
          "transcript": "ENST00000307503.4",
          "protein_id": "ENSP00000302620.3",
          "transcript_support_level": 1,
          "aa_start": 307,
          "aa_end": null,
          "aa_length": 392,
          "cds_start": 919,
          "cds_end": null,
          "cds_length": 1179,
          "cdna_start": 961,
          "cdna_end": null,
          "cdna_length": 2900,
          "mane_select": "NM_000030.3",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000307503.4"
        },
        {
          "aa_ref": "L",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AGXT",
          "gene_hgnc_id": 341,
          "hgvs_c": "c.1192delC",
          "hgvs_p": "p.Leu398fs",
          "transcript": "ENST00000908235.1",
          "protein_id": "ENSP00000578294.1",
          "transcript_support_level": null,
          "aa_start": 398,
          "aa_end": null,
          "aa_length": 483,
          "cds_start": 1192,
          "cds_end": null,
          "cds_length": 1452,
          "cdna_start": 1234,
          "cdna_end": null,
          "cdna_length": 1793,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000908235.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AGXT",
          "gene_hgnc_id": 341,
          "hgvs_c": "c.1108delC",
          "hgvs_p": "p.Leu370fs",
          "transcript": "ENST00000908236.1",
          "protein_id": "ENSP00000578295.1",
          "transcript_support_level": null,
          "aa_start": 370,
          "aa_end": null,
          "aa_length": 455,
          "cds_start": 1108,
          "cds_end": null,
          "cds_length": 1368,
          "cdna_start": 1150,
          "cdna_end": null,
          "cdna_length": 1707,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000908236.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AGXT",
          "gene_hgnc_id": 341,
          "hgvs_c": "c.1066delC",
          "hgvs_p": "p.Leu356fs",
          "transcript": "ENST00000908246.1",
          "protein_id": "ENSP00000578305.1",
          "transcript_support_level": null,
          "aa_start": 356,
          "aa_end": null,
          "aa_length": 441,
          "cds_start": 1066,
          "cds_end": null,
          "cds_length": 1326,
          "cdna_start": 1105,
          "cdna_end": null,
          "cdna_length": 1653,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000908246.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AGXT",
          "gene_hgnc_id": 341,
          "hgvs_c": "c.1000delC",
          "hgvs_p": "p.Leu334fs",
          "transcript": "ENST00000908247.1",
          "protein_id": "ENSP00000578306.1",
          "transcript_support_level": null,
          "aa_start": 334,
          "aa_end": null,
          "aa_length": 419,
          "cds_start": 1000,
          "cds_end": null,
          "cds_length": 1260,
          "cdna_start": 1016,
          "cdna_end": null,
          "cdna_length": 1573,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000908247.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AGXT",
          "gene_hgnc_id": 341,
          "hgvs_c": "c.919delC",
          "hgvs_p": "p.Leu307fs",
          "transcript": "ENST00000908244.1",
          "protein_id": "ENSP00000578303.1",
          "transcript_support_level": null,
          "aa_start": 307,
          "aa_end": null,
          "aa_length": 417,
          "cds_start": 919,
          "cds_end": null,
          "cds_length": 1254,
          "cdna_start": 961,
          "cdna_end": null,
          "cdna_length": 1588,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000908244.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AGXT",
          "gene_hgnc_id": 341,
          "hgvs_c": "c.970delC",
          "hgvs_p": "p.Leu324fs",
          "transcript": "ENST00000908232.1",
          "protein_id": "ENSP00000578291.1",
          "transcript_support_level": null,
          "aa_start": 324,
          "aa_end": null,
          "aa_length": 409,
          "cds_start": 970,
          "cds_end": null,
          "cds_length": 1230,
          "cdna_start": 1034,
          "cdna_end": null,
          "cdna_length": 1629,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000908232.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AGXT",
          "gene_hgnc_id": 341,
          "hgvs_c": "c.961delC",
          "hgvs_p": "p.Leu321fs",
          "transcript": "ENST00000908229.1",
          "protein_id": "ENSP00000578288.1",
          "transcript_support_level": null,
          "aa_start": 321,
          "aa_end": null,
          "aa_length": 406,
          "cds_start": 961,
          "cds_end": null,
          "cds_length": 1221,
          "cdna_start": 1003,
          "cdna_end": null,
          "cdna_length": 2941,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000908229.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AGXT",
          "gene_hgnc_id": 341,
          "hgvs_c": "c.937delC",
          "hgvs_p": "p.Leu313fs",
          "transcript": "ENST00000908228.1",
          "protein_id": "ENSP00000578287.1",
          "transcript_support_level": null,
          "aa_start": 313,
          "aa_end": null,
          "aa_length": 398,
          "cds_start": 937,
          "cds_end": null,
          "cds_length": 1197,
          "cdna_start": 1226,
          "cdna_end": null,
          "cdna_length": 3163,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000908228.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AGXT",
          "gene_hgnc_id": 341,
          "hgvs_c": "c.937delC",
          "hgvs_p": "p.Leu313fs",
          "transcript": "ENST00000908243.1",
          "protein_id": "ENSP00000578302.1",
          "transcript_support_level": null,
          "aa_start": 313,
          "aa_end": null,
          "aa_length": 398,
          "cds_start": 937,
          "cds_end": null,
          "cds_length": 1197,
          "cdna_start": 979,
          "cdna_end": null,
          "cdna_length": 1533,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000908243.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AGXT",
          "gene_hgnc_id": 341,
          "hgvs_c": "c.937delC",
          "hgvs_p": "p.Leu313fs",
          "transcript": "ENST00000908245.1",
          "protein_id": "ENSP00000578304.1",
          "transcript_support_level": null,
          "aa_start": 313,
          "aa_end": null,
          "aa_length": 398,
          "cds_start": 937,
          "cds_end": null,
          "cds_length": 1197,
          "cdna_start": 979,
          "cdna_end": null,
          "cdna_length": 1531,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000908245.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AGXT",
          "gene_hgnc_id": 341,
          "hgvs_c": "c.916delC",
          "hgvs_p": "p.Leu306fs",
          "transcript": "ENST00000908242.1",
          "protein_id": "ENSP00000578301.1",
          "transcript_support_level": null,
          "aa_start": 306,
          "aa_end": null,
          "aa_length": 391,
          "cds_start": 916,
          "cds_end": null,
          "cds_length": 1176,
          "cdna_start": 958,
          "cdna_end": null,
          "cdna_length": 1512,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000908242.1"
        },
        {
          "aa_ref": "L",
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          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AGXT",
          "gene_hgnc_id": 341,
          "hgvs_c": "c.910delC",
          "hgvs_p": "p.Leu304fs",
          "transcript": "ENST00000908230.1",
          "protein_id": "ENSP00000578289.1",
          "transcript_support_level": null,
          "aa_start": 304,
          "aa_end": null,
          "aa_length": 389,
          "cds_start": 910,
          "cds_end": null,
          "cds_length": 1170,
          "cdna_start": 1233,
          "cdna_end": null,
          "cdna_length": 1828,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000908230.1"
        },
        {
          "aa_ref": "L",
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          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 9,
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          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AGXT",
          "gene_hgnc_id": 341,
          "hgvs_c": "c.907delC",
          "hgvs_p": "p.Leu303fs",
          "transcript": "ENST00000908238.1",
          "protein_id": "ENSP00000578297.1",
          "transcript_support_level": null,
          "aa_start": 303,
          "aa_end": null,
          "aa_length": 388,
          "cds_start": 907,
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          "cds_length": 1167,
          "cdna_start": 949,
          "cdna_end": null,
          "cdna_length": 1506,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000908238.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AGXT",
          "gene_hgnc_id": 341,
          "hgvs_c": "c.868delC",
          "hgvs_p": "p.Leu290fs",
          "transcript": "ENST00000908231.1",
          "protein_id": "ENSP00000578290.1",
          "transcript_support_level": null,
          "aa_start": 290,
          "aa_end": null,
          "aa_length": 375,
          "cds_start": 868,
          "cds_end": null,
          "cds_length": 1128,
          "cdna_start": 1152,
          "cdna_end": null,
          "cdna_length": 1735,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000908231.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AGXT",
          "gene_hgnc_id": 341,
          "hgvs_c": "c.919delC",
          "hgvs_p": "p.Leu307fs",
          "transcript": "ENST00000908241.1",
          "protein_id": "ENSP00000578300.1",
          "transcript_support_level": null,
          "aa_start": 307,
          "aa_end": null,
          "aa_length": 373,
          "cds_start": 919,
          "cds_end": null,
          "cds_length": 1122,
          "cdna_start": 961,
          "cdna_end": null,
          "cdna_length": 1458,
          "mane_select": null,
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          "biotype": "protein_coding",
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        },
        {
          "aa_ref": "L",
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          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 9,
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          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AGXT",
          "gene_hgnc_id": 341,
          "hgvs_c": "c.919delC",
          "hgvs_p": "p.Leu307fs",
          "transcript": "ENST00000908240.1",
          "protein_id": "ENSP00000578299.1",
          "transcript_support_level": null,
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          "aa_end": null,
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          "cds_start": 919,
          "cds_end": null,
          "cds_length": 1113,
          "cdna_start": 961,
          "cdna_end": null,
          "cdna_length": 1449,
          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "ENST00000908240.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 9,
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          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AGXT",
          "gene_hgnc_id": 341,
          "hgvs_c": "c.919delC",
          "hgvs_p": "p.Leu307fs",
          "transcript": "ENST00000908237.1",
          "protein_id": "ENSP00000578296.1",
          "transcript_support_level": null,
          "aa_start": 307,
          "aa_end": null,
          "aa_length": 349,
          "cds_start": 919,
          "cds_end": null,
          "cds_length": 1050,
          "cdna_start": 961,
          "cdna_end": null,
          "cdna_length": 1389,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000908237.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 7,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "AGXT",
          "gene_hgnc_id": 341,
          "hgvs_c": "c.763delC",
          "hgvs_p": "p.Leu255fs",
          "transcript": "ENST00000908227.1",
          "protein_id": "ENSP00000578286.1",
          "transcript_support_level": null,
          "aa_start": 255,
          "aa_end": null,
          "aa_length": 340,
          "cds_start": 763,
          "cds_end": null,
          "cds_length": 1023,
          "cdna_start": 1047,
          "cdna_end": null,
          "cdna_length": 4017,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000908227.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": null,
          "canonical": false,
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          "hgvs_c": "c.649delC",
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        {
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          "gene_symbol": "AGXT",
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          "hgvs_c": "c.847-413delC",
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          "transcript": "ENST00000908233.1",
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        {
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          "gene_symbol": "AGXT",
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          "hgvs_c": "n.697delC",
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          "transcript": "ENST00000470255.1",
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          "mane_select": null,
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          "biotype": "retained_intron",
          "feature": "ENST00000470255.1"
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      ],
      "gene_symbol": "AGXT",
      "gene_hgnc_id": 341,
      "dbsnp": "rs180177295",
      "frequency_reference_population": null,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 0,
      "gnomad_exomes_af": null,
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      "gnomad_exomes_ac": null,
      "gnomad_genomes_ac": null,
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      "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": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": null,
      "revel_prediction": null,
      "alphamissense_score": null,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": null,
      "bayesdelnoaf_prediction": null,
      "phylop100way_score": 1.856,
      "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,
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      "acmg_score": 11,
      "acmg_classification": "Pathogenic",
      "acmg_criteria": "PVS1,PM2,PP5",
      "acmg_by_gene": [
        {
          "score": 11,
          "benign_score": 0,
          "pathogenic_score": 11,
          "criteria": [
            "PVS1",
            "PM2",
            "PP5"
          ],
          "verdict": "Pathogenic",
          "transcript": "NM_000030.3",
          "gene_symbol": "AGXT",
          "hgnc_id": 341,
          "effects": [
            "frameshift_variant"
          ],
          "inheritance_mode": "AR",
          "hgvs_c": "c.919delC",
          "hgvs_p": "p.Leu307fs"
        }
      ],
      "clinvar_disease": " type I,Primary hyperoxaluria",
      "clinvar_classification": "Pathogenic",
      "clinvar_review_status": "no assertion criteria provided",
      "clinvar_submissions_summary": "null",
      "phenotype_combined": "Primary hyperoxaluria, type I",
      "pathogenicity_classification_combined": "Pathogenic",
      "custom_annotations": null
    }
  ],
  "message": null
}
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