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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: 3-15642042-C-A (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=3&pos=15642042&ref=C&alt=A&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "3",
      "pos": 15642042,
      "ref": "C",
      "alt": "A",
      "effect": "synonymous_variant",
      "transcript": "ENST00000643237.3",
      "consequences": [
        {
          "aa_ref": "R",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "BTD",
          "gene_hgnc_id": 1122,
          "hgvs_c": "c.384C>A",
          "hgvs_p": "p.Arg128Arg",
          "transcript": "NM_001370658.1",
          "protein_id": "NP_001357587.1",
          "transcript_support_level": null,
          "aa_start": 128,
          "aa_end": null,
          "aa_length": 523,
          "cds_start": 384,
          "cds_end": null,
          "cds_length": 1572,
          "cdna_start": 550,
          "cdna_end": null,
          "cdna_length": 9964,
          "mane_select": "ENST00000643237.3",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "R",
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "BTD",
          "gene_hgnc_id": 1122,
          "hgvs_c": "c.384C>A",
          "hgvs_p": "p.Arg128Arg",
          "transcript": "ENST00000643237.3",
          "protein_id": "ENSP00000495254.2",
          "transcript_support_level": null,
          "aa_start": 128,
          "aa_end": null,
          "aa_length": 523,
          "cds_start": 384,
          "cds_end": null,
          "cds_length": 1572,
          "cdna_start": 550,
          "cdna_end": null,
          "cdna_length": 9964,
          "mane_select": "NM_001370658.1",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "BTD",
          "gene_hgnc_id": 1122,
          "hgvs_c": "c.384C>A",
          "hgvs_p": "p.Arg128Arg",
          "transcript": "ENST00000303498.10",
          "protein_id": "ENSP00000306477.6",
          "transcript_support_level": 1,
          "aa_start": 128,
          "aa_end": null,
          "aa_length": 523,
          "cds_start": 384,
          "cds_end": null,
          "cds_length": 1572,
          "cdna_start": 835,
          "cdna_end": null,
          "cdna_length": 2264,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "BTD",
          "gene_hgnc_id": 1122,
          "hgvs_c": "c.384C>A",
          "hgvs_p": "p.Arg128Arg",
          "transcript": "NM_001281723.4",
          "protein_id": "NP_001268652.2",
          "transcript_support_level": null,
          "aa_start": 128,
          "aa_end": null,
          "aa_length": 523,
          "cds_start": 384,
          "cds_end": null,
          "cds_length": 1572,
          "cdna_start": 426,
          "cdna_end": null,
          "cdna_length": 9840,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "BTD",
          "gene_hgnc_id": 1122,
          "hgvs_c": "c.384C>A",
          "hgvs_p": "p.Arg128Arg",
          "transcript": "NM_001281724.3",
          "protein_id": "NP_001268653.2",
          "transcript_support_level": null,
          "aa_start": 128,
          "aa_end": null,
          "aa_length": 523,
          "cds_start": 384,
          "cds_end": null,
          "cds_length": 1572,
          "cdna_start": 738,
          "cdna_end": null,
          "cdna_length": 10152,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "BTD",
          "gene_hgnc_id": 1122,
          "hgvs_c": "c.384C>A",
          "hgvs_p": "p.Arg128Arg",
          "transcript": "NM_001281725.3",
          "protein_id": "NP_001268654.1",
          "transcript_support_level": null,
          "aa_start": 128,
          "aa_end": null,
          "aa_length": 523,
          "cds_start": 384,
          "cds_end": null,
          "cds_length": 1572,
          "cdna_start": 708,
          "cdna_end": null,
          "cdna_length": 10122,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "BTD",
          "gene_hgnc_id": 1122,
          "hgvs_c": "c.384C>A",
          "hgvs_p": "p.Arg128Arg",
          "transcript": "NM_001323582.2",
          "protein_id": "NP_001310511.1",
          "transcript_support_level": null,
          "aa_start": 128,
          "aa_end": null,
          "aa_length": 523,
          "cds_start": 384,
          "cds_end": null,
          "cds_length": 1572,
          "cdna_start": 826,
          "cdna_end": null,
          "cdna_length": 10240,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "BTD",
          "gene_hgnc_id": 1122,
          "hgvs_c": "c.384C>A",
          "hgvs_p": "p.Arg128Arg",
          "transcript": "NM_001407364.1",
          "protein_id": "NP_001394293.1",
          "transcript_support_level": null,
          "aa_start": 128,
          "aa_end": null,
          "aa_length": 523,
          "cds_start": 384,
          "cds_end": null,
          "cds_length": 1572,
          "cdna_start": 514,
          "cdna_end": null,
          "cdna_length": 9928,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "BTD",
          "gene_hgnc_id": 1122,
          "hgvs_c": "c.384C>A",
          "hgvs_p": "p.Arg128Arg",
          "transcript": "NM_001407365.1",
          "protein_id": "NP_001394294.1",
          "transcript_support_level": null,
          "aa_start": 128,
          "aa_end": null,
          "aa_length": 523,
          "cds_start": 384,
          "cds_end": null,
          "cds_length": 1572,
          "cdna_start": 687,
          "cdna_end": null,
          "cdna_length": 10101,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "R",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "BTD",
          "gene_hgnc_id": 1122,
          "hgvs_c": "c.384C>A",
          "hgvs_p": "p.Arg128Arg",
          "transcript": "NM_001407366.1",
          "protein_id": "NP_001394295.1",
          "transcript_support_level": null,
          "aa_start": 128,
          "aa_end": null,
          "aa_length": 523,
          "cds_start": 384,
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          "cdna_start": 1115,
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          "cdna_length": 10529,
          "mane_select": null,
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          "biotype": null,
          "feature": null
        },
        {
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          "exon_rank": 4,
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          "exon_count": 5,
          "intron_rank": null,
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          "gene_symbol": "BTD",
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          "hgvs_c": "c.384C>A",
          "hgvs_p": "p.Arg128Arg",
          "transcript": "NM_001407367.1",
          "protein_id": "NP_001394296.1",
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          "aa_start": 128,
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          "cds_start": 384,
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          "cdna_start": 702,
          "cdna_end": null,
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          "mane_select": null,
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          "biotype": null,
          "feature": null
        },
        {
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          "protein_coding": true,
          "strand": true,
          "consequences": [
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          ],
          "exon_rank": 5,
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          "exon_count": 6,
          "intron_rank": null,
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          "gene_symbol": "BTD",
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          "hgvs_c": "c.384C>A",
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        {
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          "gene_symbol": "BTD",
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        {
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          "intron_rank": null,
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          "gene_symbol": "BTD",
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          "hgvs_c": "c.384C>A",
          "hgvs_p": "p.Arg128Arg",
          "transcript": "NM_001407370.1",
          "protein_id": "NP_001394299.1",
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        },
        {
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        {
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          "gene_symbol": "BTD",
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          "hgvs_c": "c.384C>A",
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          "transcript": "NM_001407372.1",
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        {
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          "exon_count": 5,
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          "gene_symbol": "BTD",
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        },
        {
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          "gene_symbol": "BTD",
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        },
        {
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          "gene_symbol": "BTD",
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          "mane_select": null,
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          "feature": null
        },
        {
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          "protein_coding": true,
          "strand": true,
          "consequences": [
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          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
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          "gene_symbol": "BTD",
          "gene_hgnc_id": 1122,
          "hgvs_c": "c.384C>A",
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          "transcript": "NM_001407377.1",
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      "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": -3,
      "acmg_classification": "Likely_benign",
      "acmg_criteria": "PM2,BP4_Strong,BP7",
      "acmg_by_gene": [
        {
          "score": -3,
          "benign_score": 5,
          "pathogenic_score": 2,
          "criteria": [
            "PM2",
            "BP4_Strong",
            "BP7"
          ],
          "verdict": "Likely_benign",
          "transcript": "ENST00000643237.3",
          "gene_symbol": "BTD",
          "hgnc_id": 1122,
          "effects": [
            "synonymous_variant"
          ],
          "inheritance_mode": "AR",
          "hgvs_c": "c.384C>A",
          "hgvs_p": "p.Arg128Arg"
        }
      ],
      "clinvar_disease": "",
      "clinvar_classification": "",
      "clinvar_review_status": "",
      "clinvar_submissions_summary": "",
      "phenotype_combined": null,
      "pathogenicity_classification_combined": null,
      "custom_annotations": null
    }
  ],
  "message": null
}