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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: 12-68302709-T-C (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=12&pos=68302709&ref=T&alt=C&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "12",
      "pos": 68302709,
      "ref": "T",
      "alt": "C",
      "effect": "missense_variant",
      "transcript": "NM_001354969.2",
      "consequences": [
        {
          "aa_ref": "Q",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MDM1",
          "gene_hgnc_id": 29917,
          "hgvs_c": "c.1913A>G",
          "hgvs_p": "p.Gln638Arg",
          "transcript": "NM_001354969.2",
          "protein_id": "NP_001341898.1",
          "transcript_support_level": null,
          "aa_start": 638,
          "aa_end": null,
          "aa_length": 724,
          "cds_start": 1913,
          "cds_end": null,
          "cds_length": 2175,
          "cdna_start": 2030,
          "cdna_end": null,
          "cdna_length": 2980,
          "mane_select": "ENST00000682720.1",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001354969.2"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "R",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MDM1",
          "gene_hgnc_id": 29917,
          "hgvs_c": "c.1913A>G",
          "hgvs_p": "p.Gln638Arg",
          "transcript": "ENST00000682720.1",
          "protein_id": "ENSP00000507100.1",
          "transcript_support_level": null,
          "aa_start": 638,
          "aa_end": null,
          "aa_length": 724,
          "cds_start": 1913,
          "cds_end": null,
          "cds_length": 2175,
          "cdna_start": 2030,
          "cdna_end": null,
          "cdna_length": 2980,
          "mane_select": "NM_001354969.2",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000682720.1"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "R",
          "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": "MDM1",
          "gene_hgnc_id": 29917,
          "hgvs_c": "c.1883A>G",
          "hgvs_p": "p.Gln628Arg",
          "transcript": "ENST00000303145.11",
          "protein_id": "ENSP00000302537.7",
          "transcript_support_level": 1,
          "aa_start": 628,
          "aa_end": null,
          "aa_length": 714,
          "cds_start": 1883,
          "cds_end": null,
          "cds_length": 2145,
          "cdna_start": 1970,
          "cdna_end": null,
          "cdna_length": 2918,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000303145.11"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MDM1",
          "gene_hgnc_id": 29917,
          "hgvs_c": "n.*1377A>G",
          "hgvs_p": null,
          "transcript": "ENST00000540418.5",
          "protein_id": "ENSP00000443815.2",
          "transcript_support_level": 1,
          "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": 2507,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "nonsense_mediated_decay",
          "feature": "ENST00000540418.5"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MDM1",
          "gene_hgnc_id": 29917,
          "hgvs_c": "n.*1377A>G",
          "hgvs_p": null,
          "transcript": "ENST00000540418.5",
          "protein_id": "ENSP00000443815.2",
          "transcript_support_level": 1,
          "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": 2507,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "nonsense_mediated_decay",
          "feature": "ENST00000540418.5"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "R",
          "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": "MDM1",
          "gene_hgnc_id": 29917,
          "hgvs_c": "c.1883A>G",
          "hgvs_p": "p.Gln628Arg",
          "transcript": "NM_017440.6",
          "protein_id": "NP_059136.2",
          "transcript_support_level": null,
          "aa_start": 628,
          "aa_end": null,
          "aa_length": 714,
          "cds_start": 1883,
          "cds_end": null,
          "cds_length": 2145,
          "cdna_start": 2000,
          "cdna_end": null,
          "cdna_length": 2950,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_017440.6"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "R",
          "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": "MDM1",
          "gene_hgnc_id": 29917,
          "hgvs_c": "c.1778A>G",
          "hgvs_p": "p.Gln593Arg",
          "transcript": "NM_001205028.3",
          "protein_id": "NP_001191957.1",
          "transcript_support_level": null,
          "aa_start": 593,
          "aa_end": null,
          "aa_length": 679,
          "cds_start": 1778,
          "cds_end": null,
          "cds_length": 2040,
          "cdna_start": 1895,
          "cdna_end": null,
          "cdna_length": 2845,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001205028.3"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "R",
          "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": "MDM1",
          "gene_hgnc_id": 29917,
          "hgvs_c": "c.1778A>G",
          "hgvs_p": "p.Gln593Arg",
          "transcript": "ENST00000411698.6",
          "protein_id": "ENSP00000391006.2",
          "transcript_support_level": 2,
          "aa_start": 593,
          "aa_end": null,
          "aa_length": 679,
          "cds_start": 1778,
          "cds_end": null,
          "cds_length": 2040,
          "cdna_start": 1819,
          "cdna_end": null,
          "cdna_length": 2472,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000411698.6"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "R",
          "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": "MDM1",
          "gene_hgnc_id": 29917,
          "hgvs_c": "c.1763A>G",
          "hgvs_p": "p.Gln588Arg",
          "transcript": "NM_001354970.2",
          "protein_id": "NP_001341899.1",
          "transcript_support_level": null,
          "aa_start": 588,
          "aa_end": null,
          "aa_length": 674,
          "cds_start": 1763,
          "cds_end": null,
          "cds_length": 2025,
          "cdna_start": 2122,
          "cdna_end": null,
          "cdna_length": 3072,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001354970.2"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MDM1",
          "gene_hgnc_id": 29917,
          "hgvs_c": "c.1748A>G",
          "hgvs_p": "p.Gln583Arg",
          "transcript": "ENST00000890140.1",
          "protein_id": "ENSP00000560199.1",
          "transcript_support_level": null,
          "aa_start": 583,
          "aa_end": null,
          "aa_length": 669,
          "cds_start": 1748,
          "cds_end": null,
          "cds_length": 2010,
          "cdna_start": 1878,
          "cdna_end": null,
          "cdna_length": 2829,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000890140.1"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MDM1",
          "gene_hgnc_id": 29917,
          "hgvs_c": "c.1607A>G",
          "hgvs_p": "p.Gln536Arg",
          "transcript": "ENST00000890142.1",
          "protein_id": "ENSP00000560201.1",
          "transcript_support_level": null,
          "aa_start": 536,
          "aa_end": null,
          "aa_length": 622,
          "cds_start": 1607,
          "cds_end": null,
          "cds_length": 1869,
          "cdna_start": 1697,
          "cdna_end": null,
          "cdna_length": 2647,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000890142.1"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MDM1",
          "gene_hgnc_id": 29917,
          "hgvs_c": "c.1472A>G",
          "hgvs_p": "p.Gln491Arg",
          "transcript": "ENST00000890141.1",
          "protein_id": "ENSP00000560200.1",
          "transcript_support_level": null,
          "aa_start": 491,
          "aa_end": null,
          "aa_length": 577,
          "cds_start": 1472,
          "cds_end": null,
          "cds_length": 1734,
          "cdna_start": 1589,
          "cdna_end": null,
          "cdna_length": 2539,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000890141.1"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 14,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MDM1",
          "gene_hgnc_id": 29917,
          "hgvs_c": "c.1073A>G",
          "hgvs_p": "p.Gln358Arg",
          "transcript": "NM_001354971.2",
          "protein_id": "NP_001341900.1",
          "transcript_support_level": null,
          "aa_start": 358,
          "aa_end": null,
          "aa_length": 444,
          "cds_start": 1073,
          "cds_end": null,
          "cds_length": 1335,
          "cdna_start": 2106,
          "cdna_end": null,
          "cdna_length": 3056,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001354971.2"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MDM1",
          "gene_hgnc_id": 29917,
          "hgvs_c": "c.1073A>G",
          "hgvs_p": "p.Gln358Arg",
          "transcript": "NM_001354972.2",
          "protein_id": "NP_001341901.1",
          "transcript_support_level": null,
          "aa_start": 358,
          "aa_end": null,
          "aa_length": 444,
          "cds_start": 1073,
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          "cdna_start": 2519,
          "cdna_end": null,
          "cdna_length": 3469,
          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "NM_001354972.2"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
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          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MDM1",
          "gene_hgnc_id": 29917,
          "hgvs_c": "c.1073A>G",
          "hgvs_p": "p.Gln358Arg",
          "transcript": "NM_001354973.2",
          "protein_id": "NP_001341902.1",
          "transcript_support_level": null,
          "aa_start": 358,
          "aa_end": null,
          "aa_length": 444,
          "cds_start": 1073,
          "cds_end": null,
          "cds_length": 1335,
          "cdna_start": 1971,
          "cdna_end": null,
          "cdna_length": 2921,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001354973.2"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "R",
          "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": "MDM1",
          "gene_hgnc_id": 29917,
          "hgvs_c": "c.1073A>G",
          "hgvs_p": "p.Gln358Arg",
          "transcript": "NM_001368282.1",
          "protein_id": "NP_001355211.1",
          "transcript_support_level": null,
          "aa_start": 358,
          "aa_end": null,
          "aa_length": 444,
          "cds_start": 1073,
          "cds_end": null,
          "cds_length": 1335,
          "cdna_start": 3380,
          "cdna_end": null,
          "cdna_length": 4330,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001368282.1"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MDM1",
          "gene_hgnc_id": 29917,
          "hgvs_c": "c.1043A>G",
          "hgvs_p": "p.Gln348Arg",
          "transcript": "NM_001354974.2",
          "protein_id": "NP_001341903.1",
          "transcript_support_level": null,
          "aa_start": 348,
          "aa_end": null,
          "aa_length": 434,
          "cds_start": 1043,
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          "cds_length": 1305,
          "cdna_start": 1635,
          "cdna_end": null,
          "cdna_length": 2585,
          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "NM_001354974.2"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 2,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MDM1",
          "gene_hgnc_id": 29917,
          "hgvs_c": "c.164A>G",
          "hgvs_p": "p.Gln55Arg",
          "transcript": "ENST00000539972.5",
          "protein_id": "ENSP00000445181.1",
          "transcript_support_level": 2,
          "aa_start": 55,
          "aa_end": null,
          "aa_length": 121,
          "cds_start": 164,
          "cds_end": null,
          "cds_length": 366,
          "cdna_start": 164,
          "cdna_end": null,
          "cdna_length": 805,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000539972.5"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 12,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MDM1",
          "gene_hgnc_id": 29917,
          "hgvs_c": "c.1607A>G",
          "hgvs_p": "p.Gln536Arg",
          "transcript": "XM_047429160.1",
          "protein_id": "XP_047285116.1",
          "transcript_support_level": null,
          "aa_start": 536,
          "aa_end": null,
          "aa_length": 622,
          "cds_start": 1607,
          "cds_end": null,
          "cds_length": 1869,
          "cdna_start": 1724,
          "cdna_end": null,
          "cdna_length": 2674,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_047429160.1"
        },
        {
          "aa_ref": "Q",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 9,
          "exon_rank_end": null,
          "exon_count": 11,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MDM1",
          "gene_hgnc_id": 29917,
          "hgvs_c": "c.1472A>G",
          "hgvs_p": "p.Gln491Arg",
          "transcript": "XM_047429161.1",
          "protein_id": "XP_047285117.1",
          "transcript_support_level": null,
          "aa_start": 491,
          "aa_end": null,
          "aa_length": 577,
          "cds_start": 1472,
          "cds_end": null,
          "cds_length": 1734,
          "cdna_start": 1589,
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        {
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          "cds_length": 1335,
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          "biotype": "protein_coding",
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        {
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          "exon_count": 2,
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          "biotype": "pseudogene",
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        {
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          "protein_coding": false,
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          "consequences": [
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          "gene_symbol": "MDM1",
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          "hgvs_c": "n.*94A>G",
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          "biotype": "retained_intron",
          "feature": "ENST00000536313.2"
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      ],
      "gene_symbol": "MDM1",
      "gene_hgnc_id": 29917,
      "dbsnp": "rs903163276",
      "frequency_reference_population": 0.000002478413,
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      "gnomad_exomes_af": 0.00000136815,
      "gnomad_genomes_af": 0.0000131487,
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      "gnomad_genomes_ac": 2,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.067217618227005,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.02,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.0744,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.73,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 0.361,
      "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": -2,
      "acmg_classification": "Likely_benign",
      "acmg_criteria": "PM2,BP4_Strong",
      "acmg_by_gene": [
        {
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          "benign_score": 4,
          "pathogenic_score": 2,
          "criteria": [
            "PM2",
            "BP4_Strong"
          ],
          "verdict": "Likely_benign",
          "transcript": "NM_001354969.2",
          "gene_symbol": "MDM1",
          "hgnc_id": 29917,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "Unknown",
          "hgvs_c": "c.1913A>G",
          "hgvs_p": "p.Gln638Arg"
        },
        {
          "score": -2,
          "benign_score": 4,
          "pathogenic_score": 2,
          "criteria": [
            "PM2",
            "BP4_Strong"
          ],
          "verdict": "Likely_benign",
          "transcript": "ENST00000796708.1",
          "gene_symbol": "ENSG00000303715",
          "hgnc_id": null,
          "effects": [
            "intron_variant"
          ],
          "inheritance_mode": "",
          "hgvs_c": "n.135-9705T>C",
          "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
}
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