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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: 17-7223208-C-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=17&pos=7223208&ref=C&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "17",
      "pos": 7223208,
      "ref": "C",
      "alt": "T",
      "effect": "missense_variant",
      "transcript": "NM_000018.4",
      "consequences": [
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 20,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ACADVL",
          "gene_hgnc_id": 92,
          "hgvs_c": "c.1153C>T",
          "hgvs_p": "p.Arg385Trp",
          "transcript": "NM_000018.4",
          "protein_id": "NP_000009.1",
          "transcript_support_level": null,
          "aa_start": 385,
          "aa_end": null,
          "aa_length": 655,
          "cds_start": 1153,
          "cds_end": null,
          "cds_length": 1968,
          "cdna_start": 1200,
          "cdna_end": null,
          "cdna_length": 2184,
          "mane_select": "ENST00000356839.10",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 20,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ACADVL",
          "gene_hgnc_id": 92,
          "hgvs_c": "c.1153C>T",
          "hgvs_p": "p.Arg385Trp",
          "transcript": "ENST00000356839.10",
          "protein_id": "ENSP00000349297.5",
          "transcript_support_level": 1,
          "aa_start": 385,
          "aa_end": null,
          "aa_length": 655,
          "cds_start": 1153,
          "cds_end": null,
          "cds_length": 1968,
          "cdna_start": 1200,
          "cdna_end": null,
          "cdna_length": 2184,
          "mane_select": "NM_000018.4",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ACADVL",
          "gene_hgnc_id": 92,
          "hgvs_c": "c.1087C>T",
          "hgvs_p": "p.Arg363Trp",
          "transcript": "ENST00000350303.9",
          "protein_id": "ENSP00000344152.5",
          "transcript_support_level": 1,
          "aa_start": 363,
          "aa_end": null,
          "aa_length": 633,
          "cds_start": 1087,
          "cds_end": null,
          "cds_length": 1902,
          "cdna_start": 1209,
          "cdna_end": null,
          "cdna_length": 2191,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ACADVL",
          "gene_hgnc_id": 92,
          "hgvs_c": "c.1222C>T",
          "hgvs_p": "p.Arg408Trp",
          "transcript": "NM_001270447.2",
          "protein_id": "NP_001257376.1",
          "transcript_support_level": null,
          "aa_start": 408,
          "aa_end": null,
          "aa_length": 678,
          "cds_start": 1222,
          "cds_end": null,
          "cds_length": 2037,
          "cdna_start": 1243,
          "cdna_end": null,
          "cdna_length": 2227,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 21,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ACADVL",
          "gene_hgnc_id": 92,
          "hgvs_c": "c.1222C>T",
          "hgvs_p": "p.Arg408Trp",
          "transcript": "ENST00000543245.6",
          "protein_id": "ENSP00000438689.2",
          "transcript_support_level": 2,
          "aa_start": 408,
          "aa_end": null,
          "aa_length": 678,
          "cds_start": 1222,
          "cds_end": null,
          "cds_length": 2037,
          "cdna_start": 1243,
          "cdna_end": null,
          "cdna_length": 2227,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ACADVL",
          "gene_hgnc_id": 92,
          "hgvs_c": "c.1087C>T",
          "hgvs_p": "p.Arg363Trp",
          "transcript": "NM_001033859.3",
          "protein_id": "NP_001029031.1",
          "transcript_support_level": null,
          "aa_start": 363,
          "aa_end": null,
          "aa_length": 633,
          "cds_start": 1087,
          "cds_end": null,
          "cds_length": 1902,
          "cdna_start": 1134,
          "cdna_end": null,
          "cdna_length": 2118,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ACADVL",
          "gene_hgnc_id": 92,
          "hgvs_c": "c.925C>T",
          "hgvs_p": "p.Arg309Trp",
          "transcript": "NM_001270448.2",
          "protein_id": "NP_001257377.1",
          "transcript_support_level": null,
          "aa_start": 309,
          "aa_end": null,
          "aa_length": 579,
          "cds_start": 925,
          "cds_end": null,
          "cds_length": 1740,
          "cdna_start": 1275,
          "cdna_end": null,
          "cdna_length": 2259,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 1,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ACADVL",
          "gene_hgnc_id": 92,
          "hgvs_c": "c.10C>T",
          "hgvs_p": "p.Arg4Trp",
          "transcript": "ENST00000542255.6",
          "protein_id": "ENSP00000442082.2",
          "transcript_support_level": 5,
          "aa_start": 4,
          "aa_end": null,
          "aa_length": 281,
          "cds_start": 10,
          "cds_end": null,
          "cds_length": 846,
          "cdna_start": 11,
          "cdna_end": null,
          "cdna_length": 1016,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ACADVL",
          "gene_hgnc_id": 92,
          "hgvs_c": "c.1153C>T",
          "hgvs_p": "p.Arg385Trp",
          "transcript": "XM_006721516.4",
          "protein_id": "XP_006721579.2",
          "transcript_support_level": null,
          "aa_start": 385,
          "aa_end": null,
          "aa_length": 662,
          "cds_start": 1153,
          "cds_end": null,
          "cds_length": 1989,
          "cdna_start": 1200,
          "cdna_end": null,
          "cdna_length": 2205,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ACADVL",
          "gene_hgnc_id": 92,
          "hgvs_c": "c.1153C>T",
          "hgvs_p": "p.Arg385Trp",
          "transcript": "XM_011523829.3",
          "protein_id": "XP_011522131.1",
          "transcript_support_level": null,
          "aa_start": 385,
          "aa_end": null,
          "aa_length": 628,
          "cds_start": 1153,
          "cds_end": null,
          "cds_length": 1887,
          "cdna_start": 1200,
          "cdna_end": null,
          "cdna_length": 2103,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ACADVL",
          "gene_hgnc_id": 92,
          "hgvs_c": "c.1153C>T",
          "hgvs_p": "p.Arg385Trp",
          "transcript": "XM_011523830.3",
          "protein_id": "XP_011522132.1",
          "transcript_support_level": null,
          "aa_start": 385,
          "aa_end": null,
          "aa_length": 621,
          "cds_start": 1153,
          "cds_end": null,
          "cds_length": 1866,
          "cdna_start": 1200,
          "cdna_end": null,
          "cdna_length": 2082,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ACADVL",
          "gene_hgnc_id": 92,
          "hgvs_c": "c.1153C>T",
          "hgvs_p": "p.Arg385Trp",
          "transcript": "XM_047435931.1",
          "protein_id": "XP_047291887.1",
          "transcript_support_level": null,
          "aa_start": 385,
          "aa_end": null,
          "aa_length": 549,
          "cds_start": 1153,
          "cds_end": null,
          "cds_length": 1650,
          "cdna_start": 1200,
          "cdna_end": null,
          "cdna_length": 1702,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ACADVL",
          "gene_hgnc_id": 92,
          "hgvs_c": "c.1153C>T",
          "hgvs_p": "p.Arg385Trp",
          "transcript": "XM_047435932.1",
          "protein_id": "XP_047291888.1",
          "transcript_support_level": null,
          "aa_start": 385,
          "aa_end": null,
          "aa_length": 527,
          "cds_start": 1153,
          "cds_end": null,
          "cds_length": 1584,
          "cdna_start": 1200,
          "cdna_end": null,
          "cdna_length": 1646,
          "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": 10,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ACADVL",
          "gene_hgnc_id": 92,
          "hgvs_c": "n.*1108C>T",
          "hgvs_p": null,
          "transcript": "ENST00000322910.9",
          "protein_id": "ENSP00000325395.5",
          "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": 2352,
          "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": 1,
          "exon_rank_end": null,
          "exon_count": 3,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ACADVL",
          "gene_hgnc_id": 92,
          "hgvs_c": "n.102C>T",
          "hgvs_p": null,
          "transcript": "ENST00000578579.2",
          "protein_id": null,
          "transcript_support_level": 3,
          "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": 458,
          "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": 1,
          "exon_rank_end": null,
          "exon_count": 3,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ACADVL",
          "gene_hgnc_id": 92,
          "hgvs_c": "n.569C>T",
          "hgvs_p": null,
          "transcript": "ENST00000578824.5",
          "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": 720,
          "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": 1,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ACADVL",
          "gene_hgnc_id": 92,
          "hgvs_c": "n.177C>T",
          "hgvs_p": null,
          "transcript": "ENST00000579425.5",
          "protein_id": null,
          "transcript_support_level": 5,
          "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": 1234,
          "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": 3,
          "exon_rank_end": null,
          "exon_count": 3,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ACADVL",
          "gene_hgnc_id": 92,
          "hgvs_c": "n.804C>T",
          "hgvs_p": null,
          "transcript": "ENST00000582379.1",
          "protein_id": null,
          "transcript_support_level": 3,
          "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": 833,
          "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": 2,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ACADVL",
          "gene_hgnc_id": 92,
          "hgvs_c": "n.181C>T",
          "hgvs_p": null,
          "transcript": "ENST00000583858.5",
          "protein_id": "ENSP00000462611.1",
          "transcript_support_level": 5,
          "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": 1015,
          "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": 1,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ACADVL",
          "gene_hgnc_id": 92,
          "hgvs_c": "n.361C>T",
          "hgvs_p": null,
          "transcript": "ENST00000585203.6",
          "protein_id": null,
          "transcript_support_level": 5,
          "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": 947,
          "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": 11,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "ACADVL",
          "gene_hgnc_id": 92,
          "hgvs_c": "n.1200C>T",
          "hgvs_p": null,
          "transcript": "XR_007065296.1",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
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          "transcript": "ENST00000579546.1",
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        },
        {
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          "gene_symbol": "MIR324",
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          "hgvs_c": "n.*100G>A",
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          "transcript": "unassigned_transcript_2937",
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        },
        {
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            "downstream_gene_variant"
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          "gene_symbol": "MIR324",
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          "hgvs_c": "n.*135G>A",
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          "transcript": "unassigned_transcript_2938",
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          "cdna_length": 22,
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        }
      ],
      "gene_symbol": "ACADVL",
      "gene_hgnc_id": 92,
      "dbsnp": "rs745832866",
      "frequency_reference_population": 0.000025404395,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 41,
      "gnomad_exomes_af": 0.0000239449,
      "gnomad_genomes_af": 0.0000394208,
      "gnomad_exomes_ac": 35,
      "gnomad_genomes_ac": 6,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.9383746385574341,
      "computational_prediction_selected": "Pathogenic",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.909,
      "revel_prediction": "Pathogenic",
      "alphamissense_score": 0.1466,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": 0.41,
      "bayesdelnoaf_prediction": "Pathogenic",
      "phylop100way_score": 1.878,
      "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": 7,
      "acmg_classification": "Likely_pathogenic",
      "acmg_criteria": "PM1,PM5,PP3_Moderate,PP5",
      "acmg_by_gene": [
        {
          "score": 7,
          "benign_score": 0,
          "pathogenic_score": 7,
          "criteria": [
            "PM1",
            "PM5",
            "PP3_Moderate",
            "PP5"
          ],
          "verdict": "Likely_pathogenic",
          "transcript": "NM_000018.4",
          "gene_symbol": "ACADVL",
          "hgnc_id": 92,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AR",
          "hgvs_c": "c.1153C>T",
          "hgvs_p": "p.Arg385Trp"
        },
        {
          "score": 3,
          "benign_score": 0,
          "pathogenic_score": 3,
          "criteria": [
            "PP3_Moderate",
            "PP5"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "NR_029896.1",
          "gene_symbol": "MIR324",
          "hgnc_id": 31767,
          "effects": [
            "downstream_gene_variant"
          ],
          "inheritance_mode": "",
          "hgvs_c": "n.*89G>A",
          "hgvs_p": null
        }
      ],
      "clinvar_disease": "ACADVL-related disorder,Very long chain acyl-CoA dehydrogenase deficiency,not provided",
      "clinvar_classification": "Conflicting classifications of pathogenicity",
      "clinvar_review_status": "criteria provided, conflicting classifications",
      "clinvar_submissions_summary": "P:5 LP:2 US:2",
      "phenotype_combined": "not provided|Very long chain acyl-CoA dehydrogenase deficiency|ACADVL-related disorder",
      "pathogenicity_classification_combined": "Conflicting classifications of pathogenicity",
      "custom_annotations": null
    }
  ],
  "message": null
}