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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: 4-120695123-T-C (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=4&pos=120695123&ref=T&alt=C&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "4",
      "pos": 120695123,
      "ref": "T",
      "alt": "C",
      "effect": "synonymous_variant",
      "transcript": "NM_001379104.1",
      "consequences": [
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 16,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PRDM5",
          "gene_hgnc_id": 9349,
          "hgvs_c": "c.1881A>G",
          "hgvs_p": "p.Val627Val",
          "transcript": "NM_018699.4",
          "protein_id": "NP_061169.2",
          "transcript_support_level": null,
          "aa_start": 627,
          "aa_end": null,
          "aa_length": 630,
          "cds_start": 1881,
          "cds_end": null,
          "cds_length": 1893,
          "cdna_start": 1999,
          "cdna_end": null,
          "cdna_length": 5207,
          "mane_select": "ENST00000264808.8",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_018699.4"
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 16,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PRDM5",
          "gene_hgnc_id": 9349,
          "hgvs_c": "c.1881A>G",
          "hgvs_p": "p.Val627Val",
          "transcript": "ENST00000264808.8",
          "protein_id": "ENSP00000264808.3",
          "transcript_support_level": 1,
          "aa_start": 627,
          "aa_end": null,
          "aa_length": 630,
          "cds_start": 1881,
          "cds_end": null,
          "cds_length": 1893,
          "cdna_start": 1999,
          "cdna_end": null,
          "cdna_length": 5207,
          "mane_select": "NM_018699.4",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000264808.8"
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 15,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PRDM5",
          "gene_hgnc_id": 9349,
          "hgvs_c": "c.1788A>G",
          "hgvs_p": "p.Val596Val",
          "transcript": "ENST00000428209.6",
          "protein_id": "ENSP00000404832.2",
          "transcript_support_level": 1,
          "aa_start": 596,
          "aa_end": null,
          "aa_length": 599,
          "cds_start": 1788,
          "cds_end": null,
          "cds_length": 1800,
          "cdna_start": 2038,
          "cdna_end": null,
          "cdna_length": 2338,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000428209.6"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 14,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PRDM5",
          "gene_hgnc_id": 9349,
          "hgvs_c": "c.*196A>G",
          "hgvs_p": null,
          "transcript": "ENST00000515109.5",
          "protein_id": "ENSP00000422309.1",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 501,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 1506,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 2259,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000515109.5"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 16,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PRDM5",
          "gene_hgnc_id": 9349,
          "hgvs_c": "n.2384A>G",
          "hgvs_p": null,
          "transcript": "ENST00000505484.5",
          "protein_id": null,
          "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": 2396,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "retained_intron",
          "feature": "ENST00000505484.5"
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 16,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PRDM5",
          "gene_hgnc_id": 9349,
          "hgvs_c": "c.1914A>G",
          "hgvs_p": "p.Val638Val",
          "transcript": "NM_001379104.1",
          "protein_id": "NP_001366033.1",
          "transcript_support_level": null,
          "aa_start": 638,
          "aa_end": null,
          "aa_length": 641,
          "cds_start": 1914,
          "cds_end": null,
          "cds_length": 1926,
          "cdna_start": 2032,
          "cdna_end": null,
          "cdna_length": 5240,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001379104.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 16,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PRDM5",
          "gene_hgnc_id": 9349,
          "hgvs_c": "c.1914A>G",
          "hgvs_p": "p.Val638Val",
          "transcript": "ENST00000940463.1",
          "protein_id": "ENSP00000610522.1",
          "transcript_support_level": null,
          "aa_start": 638,
          "aa_end": null,
          "aa_length": 641,
          "cds_start": 1914,
          "cds_end": null,
          "cds_length": 1926,
          "cdna_start": 2312,
          "cdna_end": null,
          "cdna_length": 4001,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000940463.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 15,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PRDM5",
          "gene_hgnc_id": 9349,
          "hgvs_c": "c.1821A>G",
          "hgvs_p": "p.Val607Val",
          "transcript": "ENST00000940462.1",
          "protein_id": "ENSP00000610521.1",
          "transcript_support_level": null,
          "aa_start": 607,
          "aa_end": null,
          "aa_length": 610,
          "cds_start": 1821,
          "cds_end": null,
          "cds_length": 1833,
          "cdna_start": 2062,
          "cdna_end": null,
          "cdna_length": 5265,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000940462.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 15,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PRDM5",
          "gene_hgnc_id": 9349,
          "hgvs_c": "c.1788A>G",
          "hgvs_p": "p.Val596Val",
          "transcript": "NM_001300823.2",
          "protein_id": "NP_001287752.1",
          "transcript_support_level": null,
          "aa_start": 596,
          "aa_end": null,
          "aa_length": 599,
          "cds_start": 1788,
          "cds_end": null,
          "cds_length": 1800,
          "cdna_start": 1906,
          "cdna_end": null,
          "cdna_length": 5114,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001300823.2"
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 15,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PRDM5",
          "gene_hgnc_id": 9349,
          "hgvs_c": "c.1776A>G",
          "hgvs_p": "p.Val592Val",
          "transcript": "ENST00000898038.1",
          "protein_id": "ENSP00000568097.1",
          "transcript_support_level": null,
          "aa_start": 592,
          "aa_end": null,
          "aa_length": 595,
          "cds_start": 1776,
          "cds_end": null,
          "cds_length": 1788,
          "cdna_start": 1951,
          "cdna_end": null,
          "cdna_length": 5159,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000898038.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 14,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PRDM5",
          "gene_hgnc_id": 9349,
          "hgvs_c": "c.1704A>G",
          "hgvs_p": "p.Val568Val",
          "transcript": "ENST00000898039.1",
          "protein_id": "ENSP00000568098.1",
          "transcript_support_level": null,
          "aa_start": 568,
          "aa_end": null,
          "aa_length": 571,
          "cds_start": 1704,
          "cds_end": null,
          "cds_length": 1716,
          "cdna_start": 1935,
          "cdna_end": null,
          "cdna_length": 2112,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000898039.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 14,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PRDM5",
          "gene_hgnc_id": 9349,
          "hgvs_c": "c.1683A>G",
          "hgvs_p": "p.Val561Val",
          "transcript": "NM_001379106.1",
          "protein_id": "NP_001366035.1",
          "transcript_support_level": null,
          "aa_start": 561,
          "aa_end": null,
          "aa_length": 564,
          "cds_start": 1683,
          "cds_end": null,
          "cds_length": 1695,
          "cdna_start": 1801,
          "cdna_end": null,
          "cdna_length": 5009,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001379106.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 14,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PRDM5",
          "gene_hgnc_id": 9349,
          "hgvs_c": "c.1683A>G",
          "hgvs_p": "p.Val561Val",
          "transcript": "ENST00000940461.1",
          "protein_id": "ENSP00000610520.1",
          "transcript_support_level": null,
          "aa_start": 561,
          "aa_end": null,
          "aa_length": 564,
          "cds_start": 1683,
          "cds_end": null,
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          "cdna_start": 2164,
          "cdna_end": null,
          "cdna_length": 5372,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000940461.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 16,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PRDM5",
          "gene_hgnc_id": 9349,
          "hgvs_c": "c.1836A>G",
          "hgvs_p": "p.Val612Val",
          "transcript": "XM_017007668.3",
          "protein_id": "XP_016863157.1",
          "transcript_support_level": null,
          "aa_start": 612,
          "aa_end": null,
          "aa_length": 615,
          "cds_start": 1836,
          "cds_end": null,
          "cds_length": 1848,
          "cdna_start": 4657,
          "cdna_end": null,
          "cdna_length": 7865,
          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "XM_017007668.3"
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 15,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
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          "gene_symbol": "PRDM5",
          "gene_hgnc_id": 9349,
          "hgvs_c": "c.1821A>G",
          "hgvs_p": "p.Val607Val",
          "transcript": "XM_011531563.3",
          "protein_id": "XP_011529865.1",
          "transcript_support_level": null,
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          "aa_end": null,
          "aa_length": 610,
          "cds_start": 1821,
          "cds_end": null,
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          "cdna_start": 1939,
          "cdna_end": null,
          "cdna_length": 5147,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_011531563.3"
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 15,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PRDM5",
          "gene_hgnc_id": 9349,
          "hgvs_c": "c.1809A>G",
          "hgvs_p": "p.Val603Val",
          "transcript": "XM_011531564.3",
          "protein_id": "XP_011529866.1",
          "transcript_support_level": null,
          "aa_start": 603,
          "aa_end": null,
          "aa_length": 606,
          "cds_start": 1809,
          "cds_end": null,
          "cds_length": 1821,
          "cdna_start": 1927,
          "cdna_end": null,
          "cdna_length": 5135,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_011531564.3"
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 15,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PRDM5",
          "gene_hgnc_id": 9349,
          "hgvs_c": "c.1776A>G",
          "hgvs_p": "p.Val592Val",
          "transcript": "XM_047449554.1",
          "protein_id": "XP_047305510.1",
          "transcript_support_level": null,
          "aa_start": 592,
          "aa_end": null,
          "aa_length": 595,
          "cds_start": 1776,
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          "cdna_start": 1894,
          "cdna_end": null,
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          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "XM_047449554.1"
        },
        {
          "aa_ref": "V",
          "aa_alt": "V",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PRDM5",
          "gene_hgnc_id": 9349,
          "hgvs_c": "c.939A>G",
          "hgvs_p": "p.Val313Val",
          "transcript": "XM_017007671.2",
          "protein_id": "XP_016863160.1",
          "transcript_support_level": null,
          "aa_start": 313,
          "aa_end": null,
          "aa_length": 316,
          "cds_start": 939,
          "cds_end": null,
          "cds_length": 951,
          "cdna_start": 1245,
          "cdna_end": null,
          "cdna_length": 4453,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_017007671.2"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 14,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PRDM5",
          "gene_hgnc_id": 9349,
          "hgvs_c": "c.*196A>G",
          "hgvs_p": null,
          "transcript": "NM_001300824.2",
          "protein_id": "NP_001287753.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 501,
          "cds_start": null,
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          "cds_length": 1506,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 5028,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001300824.2"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": 15,
          "intron_rank_end": null,
          "gene_symbol": "PRDM5",
          "gene_hgnc_id": 9349,
          "hgvs_c": "c.1762-10098A>G",
          "hgvs_p": null,
          "transcript": "XM_011531566.4",
          "protein_id": "XP_011529868.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 589,
          "cds_start": null,
          "cds_end": null,
          "cds_length": 1770,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 2614,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
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        },
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          "biotype": "protein_coding",
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        {
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          "transcript": "ENST00000513741.1",
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        {
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          "biotype": "pseudogene",
          "feature": "ENST00000506065.1"
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      ],
      "gene_symbol": "PRDM5",
      "gene_hgnc_id": 9349,
      "dbsnp": null,
      "frequency_reference_population": null,
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      "allele_count_reference_population": 0,
      "gnomad_exomes_af": null,
      "gnomad_genomes_af": null,
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      "gnomad_genomes_ac": null,
      "gnomad_exomes_homalt": null,
      "gnomad_genomes_homalt": null,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": -0.550000011920929,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "BayesDel_noAF",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": null,
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      "alphamissense_score": null,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.55,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 0.46,
      "phylop100way_prediction": "Benign",
      "spliceai_max_score": 0,
      "spliceai_max_prediction": "Benign",
      "dbscsnv_ada_score": null,
      "dbscsnv_ada_prediction": null,
      "apogee2_score": null,
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      "mitotip_score": null,
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      "acmg_score": -5,
      "acmg_classification": "Likely_benign",
      "acmg_criteria": "PM2,BP4_Strong,BP6_Moderate,BP7",
      "acmg_by_gene": [
        {
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          "benign_score": 7,
          "pathogenic_score": 2,
          "criteria": [
            "PM2",
            "BP4_Strong",
            "BP6_Moderate",
            "BP7"
          ],
          "verdict": "Likely_benign",
          "transcript": "NM_001379104.1",
          "gene_symbol": "PRDM5",
          "hgnc_id": 9349,
          "effects": [
            "synonymous_variant"
          ],
          "inheritance_mode": "AD,AR",
          "hgvs_c": "c.1914A>G",
          "hgvs_p": "p.Val638Val"
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      ],
      "clinvar_disease": "Cardiovascular phenotype",
      "clinvar_classification": "Likely benign",
      "clinvar_review_status": "criteria provided, single submitter",
      "clinvar_submissions_summary": "LB:1",
      "phenotype_combined": "Cardiovascular phenotype",
      "pathogenicity_classification_combined": "Likely benign",
      "custom_annotations": null
    }
  ],
  "message": null
}
For research and educational, non-commercial use only. Not for clinical or diagnostic use. GeneBe does not provide medical advice. Data use for AI modeling is prohibited: if used, the cost is $0.001 per byte of downloaded uncompressed data.