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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: 7-99849628-C-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=7&pos=99849628&ref=C&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "7",
      "pos": 99849628,
      "ref": "C",
      "alt": "T",
      "effect": "missense_variant",
      "transcript": "ENST00000354829.7",
      "consequences": [
        {
          "aa_ref": "P",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 7,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "c.604C>T",
          "hgvs_p": "p.Pro202Ser",
          "transcript": "NM_057095.3",
          "protein_id": "NP_476436.1",
          "transcript_support_level": null,
          "aa_start": 202,
          "aa_end": null,
          "aa_length": 503,
          "cds_start": 604,
          "cds_end": null,
          "cds_length": 1512,
          "cdna_start": 707,
          "cdna_end": null,
          "cdna_length": 1707,
          "mane_select": "ENST00000354829.7",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "P",
          "aa_alt": "S",
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 7,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "c.604C>T",
          "hgvs_p": "p.Pro202Ser",
          "transcript": "ENST00000354829.7",
          "protein_id": "ENSP00000346887.3",
          "transcript_support_level": 1,
          "aa_start": 202,
          "aa_end": null,
          "aa_length": 503,
          "cds_start": 604,
          "cds_end": null,
          "cds_length": 1512,
          "cdna_start": 707,
          "cdna_end": null,
          "cdna_length": 1707,
          "mane_select": "NM_057095.3",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "P",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 7,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "c.604C>T",
          "hgvs_p": "p.Pro202Ser",
          "transcript": "ENST00000222382.5",
          "protein_id": "ENSP00000222382.5",
          "transcript_support_level": 1,
          "aa_start": 202,
          "aa_end": null,
          "aa_length": 504,
          "cds_start": 604,
          "cds_end": null,
          "cds_length": 1515,
          "cdna_start": 604,
          "cdna_end": null,
          "cdna_length": 1515,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "P",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 7,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "c.604C>T",
          "hgvs_p": "p.Pro202Ser",
          "transcript": "ENST00000312017.9",
          "protein_id": "ENSP00000312110.5",
          "transcript_support_level": 1,
          "aa_start": 202,
          "aa_end": null,
          "aa_length": 420,
          "cds_start": 604,
          "cds_end": null,
          "cds_length": 1263,
          "cdna_start": 604,
          "cdna_end": null,
          "cdna_length": 1349,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 7,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "n.604C>T",
          "hgvs_p": null,
          "transcript": "ENST00000434806.5",
          "protein_id": "ENSP00000411653.1",
          "transcript_support_level": 1,
          "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": 1633,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "n.*297C>T",
          "hgvs_p": null,
          "transcript": "ENST00000436834.5",
          "protein_id": "ENSP00000415221.1",
          "transcript_support_level": 1,
          "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": 1279,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "n.*297C>T",
          "hgvs_p": null,
          "transcript": "ENST00000436834.5",
          "protein_id": "ENSP00000415221.1",
          "transcript_support_level": 1,
          "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": 1279,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": 4,
          "intron_rank_end": null,
          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "c.341-5963C>T",
          "hgvs_p": null,
          "transcript": "ENST00000417625.5",
          "protein_id": "ENSP00000416581.1",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 393,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 1182,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 1255,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "P",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 7,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "c.604C>T",
          "hgvs_p": "p.Pro202Ser",
          "transcript": "NM_022820.5",
          "protein_id": "NP_073731.1",
          "transcript_support_level": null,
          "aa_start": 202,
          "aa_end": null,
          "aa_length": 504,
          "cds_start": 604,
          "cds_end": null,
          "cds_length": 1515,
          "cdna_start": 707,
          "cdna_end": null,
          "cdna_length": 1710,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "P",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 7,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "c.604C>T",
          "hgvs_p": "p.Pro202Ser",
          "transcript": "NM_057096.4",
          "protein_id": "NP_476437.1",
          "transcript_support_level": null,
          "aa_start": 202,
          "aa_end": null,
          "aa_length": 420,
          "cds_start": 604,
          "cds_end": null,
          "cds_length": 1263,
          "cdna_start": 707,
          "cdna_end": null,
          "cdna_length": 1544,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "P",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "c.274C>T",
          "hgvs_p": "p.Pro92Ser",
          "transcript": "XM_047420745.1",
          "protein_id": "XP_047276701.1",
          "transcript_support_level": null,
          "aa_start": 92,
          "aa_end": null,
          "aa_length": 394,
          "cds_start": 274,
          "cds_end": null,
          "cds_length": 1185,
          "cdna_start": 375,
          "cdna_end": null,
          "cdna_length": 1378,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "P",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "c.274C>T",
          "hgvs_p": "p.Pro92Ser",
          "transcript": "XM_047420746.1",
          "protein_id": "XP_047276702.1",
          "transcript_support_level": null,
          "aa_start": 92,
          "aa_end": null,
          "aa_length": 394,
          "cds_start": 274,
          "cds_end": null,
          "cds_length": 1185,
          "cdna_start": 533,
          "cdna_end": null,
          "cdna_length": 1536,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "P",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "c.172C>T",
          "hgvs_p": "p.Pro58Ser",
          "transcript": "XM_017012544.2",
          "protein_id": "XP_016868033.1",
          "transcript_support_level": null,
          "aa_start": 58,
          "aa_end": null,
          "aa_length": 360,
          "cds_start": 172,
          "cds_end": null,
          "cds_length": 1083,
          "cdna_start": 261,
          "cdna_end": null,
          "cdna_length": 1264,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "P",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "c.172C>T",
          "hgvs_p": "p.Pro58Ser",
          "transcript": "XM_017012545.2",
          "protein_id": "XP_016868034.1",
          "transcript_support_level": null,
          "aa_start": 58,
          "aa_end": null,
          "aa_length": 360,
          "cds_start": 172,
          "cds_end": null,
          "cds_length": 1083,
          "cdna_start": 241,
          "cdna_end": null,
          "cdna_length": 1244,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "n.*173C>T",
          "hgvs_p": null,
          "transcript": "ENST00000433277.5",
          "protein_id": "ENSP00000400316.1",
          "transcript_support_level": 5,
          "aa_start": null,
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          "aa_length": null,
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          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": 1313,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
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          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "n.1068C>T",
          "hgvs_p": null,
          "transcript": "ENST00000481362.5",
          "protein_id": null,
          "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": 1848,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "n.571C>T",
          "hgvs_p": null,
          "transcript": "NR_103868.2",
          "protein_id": null,
          "transcript_support_level": null,
          "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": 1401,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 7,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "n.707C>T",
          "hgvs_p": null,
          "transcript": "NR_103869.2",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
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          "aa_length": null,
          "cds_start": -4,
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          "cdna_start": null,
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          "cdna_length": 1828,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
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          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "n.*173C>T",
          "hgvs_p": null,
          "transcript": "ENST00000433277.5",
          "protein_id": "ENSP00000400316.1",
          "transcript_support_level": 5,
          "aa_start": null,
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          "cds_length": null,
          "cdna_start": null,
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          "cdna_length": 1313,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": 4,
          "intron_rank_end": null,
          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "c.341-5963C>T",
          "hgvs_p": null,
          "transcript": "NM_001278921.2",
          "protein_id": "NP_001265850.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 393,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 1182,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 1377,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "c.166-7205C>T",
          "hgvs_p": null,
          "transcript": "ENST00000415413.5",
          "protein_id": "ENSP00000401521.1",
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          "aa_start": null,
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        {
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          "gene_symbol": "CYP3A43",
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        },
        {
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          "gene_symbol": "CYP3A43",
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          "hgvs_c": "n.139-5963C>T",
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        },
        {
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            "intron_variant"
          ],
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          "exon_count": 4,
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          "gene_symbol": "CYP3A43",
          "gene_hgnc_id": 17450,
          "hgvs_c": "n.139-10202C>T",
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          "transcript": "ENST00000495115.5",
          "protein_id": null,
          "transcript_support_level": 5,
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          "cds_end": null,
          "cds_length": null,
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          "cdna_length": 666,
          "mane_select": null,
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          "biotype": null,
          "feature": null
        }
      ],
      "gene_symbol": "CYP3A43",
      "gene_hgnc_id": 17450,
      "dbsnp": "rs200371261",
      "frequency_reference_population": 0.00001860172,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 30,
      "gnomad_exomes_af": 0.0000123246,
      "gnomad_genomes_af": 0.0000788126,
      "gnomad_exomes_ac": 18,
      "gnomad_genomes_ac": 12,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.2163318693637848,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.328,
      "revel_prediction": "Uncertain_significance",
      "alphamissense_score": 0.2183,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.32,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 4.092,
      "phylop100way_prediction": "Uncertain_significance",
      "spliceai_max_score": 0,
      "spliceai_max_prediction": "Benign",
      "dbscsnv_ada_score": null,
      "dbscsnv_ada_prediction": null,
      "apogee2_score": null,
      "apogee2_prediction": null,
      "mitotip_score": null,
      "mitotip_prediction": null,
      "acmg_score": -2,
      "acmg_classification": "Likely_benign",
      "acmg_criteria": "BP4_Moderate",
      "acmg_by_gene": [
        {
          "score": -2,
          "benign_score": 2,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Moderate"
          ],
          "verdict": "Likely_benign",
          "transcript": "ENST00000354829.7",
          "gene_symbol": "CYP3A43",
          "hgnc_id": 17450,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AR",
          "hgvs_c": "c.604C>T",
          "hgvs_p": "p.Pro202Ser"
        }
      ],
      "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
}