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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: 14-64457259-G-A (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=14&pos=64457259&ref=G&alt=A&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "14",
      "pos": 64457259,
      "ref": "G",
      "alt": "A",
      "effect": "intron_variant",
      "transcript": "ENST00000652337.1",
      "consequences": [
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 28,
          "intron_rank": 26,
          "intron_rank_end": null,
          "gene_symbol": "MTHFD1",
          "gene_hgnc_id": 7432,
          "hgvs_c": "c.2719-955G>A",
          "hgvs_p": null,
          "transcript": "NM_005956.4",
          "protein_id": "NP_005947.3",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 935,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 2808,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 3154,
          "mane_select": "ENST00000652337.1",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 28,
          "intron_rank": 26,
          "intron_rank_end": null,
          "gene_symbol": "MTHFD1",
          "gene_hgnc_id": 7432,
          "hgvs_c": "c.2719-955G>A",
          "hgvs_p": null,
          "transcript": "ENST00000652337.1",
          "protein_id": "ENSP00000498336.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 935,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 2808,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 3154,
          "mane_select": "NM_005956.4",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "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": 3,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "ZBTB25",
          "gene_hgnc_id": 13112,
          "hgvs_c": "c.174-7621C>T",
          "hgvs_p": null,
          "transcript": "ENST00000555220.5",
          "protein_id": "ENSP00000450718.1",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 86,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 261,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 1440,
          "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": 26,
          "exon_rank_end": null,
          "exon_count": 27,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MTHFD1",
          "gene_hgnc_id": 7432,
          "hgvs_c": "n.5251G>A",
          "hgvs_p": null,
          "transcript": "ENST00000697166.1",
          "protein_id": null,
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 6522,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 27,
          "intron_rank": 26,
          "intron_rank_end": null,
          "gene_symbol": "MTHFD1",
          "gene_hgnc_id": 7432,
          "hgvs_c": "c.2718+2384G>A",
          "hgvs_p": null,
          "transcript": "NM_001364837.1",
          "protein_id": "NP_001351766.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 964,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 2895,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 3060,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 27,
          "intron_rank": 26,
          "intron_rank_end": null,
          "gene_symbol": "MTHFD1",
          "gene_hgnc_id": 7432,
          "hgvs_c": "c.2718+2384G>A",
          "hgvs_p": null,
          "transcript": "ENST00000545908.6",
          "protein_id": "ENSP00000438588.2",
          "transcript_support_level": 2,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 964,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 2895,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 6814,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 27,
          "intron_rank": 25,
          "intron_rank_end": null,
          "gene_symbol": "MTHFD1",
          "gene_hgnc_id": 7432,
          "hgvs_c": "c.2566-955G>A",
          "hgvs_p": null,
          "transcript": "ENST00000697168.1",
          "protein_id": "ENSP00000513156.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 884,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 2655,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 3038,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 29,
          "intron_rank": 27,
          "intron_rank_end": null,
          "gene_symbol": "MTHFD1",
          "gene_hgnc_id": 7432,
          "hgvs_c": "c.2476-955G>A",
          "hgvs_p": null,
          "transcript": "ENST00000554768.6",
          "protein_id": "ENSP00000477501.2",
          "transcript_support_level": 4,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 854,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 2565,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 3295,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 28,
          "intron_rank": 26,
          "intron_rank_end": null,
          "gene_symbol": "MTHFD1",
          "gene_hgnc_id": 7432,
          "hgvs_c": "c.2476-955G>A",
          "hgvs_p": null,
          "transcript": "ENST00000557539.2",
          "protein_id": "ENSP00000476468.2",
          "transcript_support_level": 4,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 854,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 2565,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 3732,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 30,
          "intron_rank": 28,
          "intron_rank_end": null,
          "gene_symbol": "MTHFD1",
          "gene_hgnc_id": 7432,
          "hgvs_c": "c.2476-955G>A",
          "hgvs_p": null,
          "transcript": "ENST00000697173.1",
          "protein_id": "ENSP00000513159.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 854,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 2565,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 3958,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
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          ],
          "exon_rank": null,
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          "exon_count": 26,
          "intron_rank": 24,
          "intron_rank_end": null,
          "gene_symbol": "MTHFD1",
          "gene_hgnc_id": 7432,
          "hgvs_c": "c.2470-955G>A",
          "hgvs_p": null,
          "transcript": "ENST00000697174.1",
          "protein_id": "ENSP00000513160.1",
          "transcript_support_level": null,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 852,
          "cds_start": -4,
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          "cds_length": 2559,
          "cdna_start": null,
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          "cdna_length": 2897,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": 17,
          "intron_rank_end": null,
          "gene_symbol": "MTHFD1",
          "gene_hgnc_id": 7432,
          "hgvs_c": "c.1843-955G>A",
          "hgvs_p": null,
          "transcript": "ENST00000652509.1",
          "protein_id": "ENSP00000499176.1",
          "transcript_support_level": null,
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          "cdna_start": null,
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          "mane_select": null,
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          "feature": null
        },
        {
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          "canonical": false,
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          "strand": false,
          "consequences": [
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          ],
          "exon_rank": null,
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          "exon_count": 3,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "ZBTB25",
          "gene_hgnc_id": 13112,
          "hgvs_c": "c.257-7621C>T",
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          "transcript": "ENST00000555424.1",
          "protein_id": "ENSP00000451046.1",
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          "cds_start": -4,
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          "mane_select": null,
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        {
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          ],
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          "exon_count": 3,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "ZBTB25",
          "gene_hgnc_id": 13112,
          "hgvs_c": "c.174-7621C>T",
          "hgvs_p": null,
          "transcript": "NM_001304508.1",
          "protein_id": "NP_001291437.1",
          "transcript_support_level": null,
          "aa_start": null,
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          "aa_length": 86,
          "cds_start": -4,
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          "cdna_start": null,
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          "cdna_length": 1440,
          "mane_select": null,
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
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          "canonical": false,
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          "consequences": [
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          ],
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          "exon_count": 6,
          "intron_rank": 3,
          "intron_rank_end": null,
          "gene_symbol": "MTHFD1",
          "gene_hgnc_id": 7432,
          "hgvs_c": "n.384-955G>A",
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        {
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          ],
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          "exon_count": 27,
          "intron_rank": 24,
          "intron_rank_end": null,
          "gene_symbol": "MTHFD1",
          "gene_hgnc_id": 7432,
          "hgvs_c": "n.3835-955G>A",
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          "transcript": "ENST00000650853.1",
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          "biotype": null,
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        },
        {
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          "canonical": false,
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          "strand": true,
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          "exon_rank": null,
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          "exon_count": 29,
          "intron_rank": 26,
          "intron_rank_end": null,
          "gene_symbol": "MTHFD1",
          "gene_hgnc_id": 7432,
          "hgvs_c": "n.2719-955G>A",
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          "transcript": "ENST00000651537.1",
          "protein_id": "ENSP00000498511.1",
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          "mane_select": null,
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          "feature": null
        },
        {
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          "canonical": false,
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          "strand": true,
          "consequences": [
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          ],
          "exon_rank": null,
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          "exon_count": 7,
          "intron_rank": 5,
          "intron_rank_end": null,
          "gene_symbol": "MTHFD1",
          "gene_hgnc_id": 7432,
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        {
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          "intron_rank": 28,
          "intron_rank_end": null,
          "gene_symbol": "MTHFD1",
          "gene_hgnc_id": 7432,
          "hgvs_c": "n.2476-955G>A",
          "hgvs_p": null,
          "transcript": "ENST00000652179.1",
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        },
        {
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          "strand": true,
          "consequences": [
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          ],
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          "intron_rank_end": null,
          "gene_symbol": "MTHFD1",
          "gene_hgnc_id": 7432,
          "hgvs_c": "n.*1250-955G>A",
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          "transcript": "ENST00000697167.1",
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          "cdna_start": null,
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          "cdna_length": 2901,
          "mane_select": null,
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          "biotype": null,
          "feature": null
        },
        {
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          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
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          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 27,
          "intron_rank": 25,
          "intron_rank_end": null,
          "gene_symbol": "MTHFD1",
          "gene_hgnc_id": 7432,
          "hgvs_c": "n.*720-955G>A",
          "hgvs_p": null,
          "transcript": "ENST00000697169.1",
          "protein_id": "ENSP00000513157.1",
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      ],
      "gene_symbol": "MTHFD1",
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      "gnomad_exomes_af": null,
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      "gnomad_genomes_ac": 41859,
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      "gnomad_genomes_homalt": 5918,
      "gnomad_mito_homoplasmic": null,
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      "computational_score_selected": -0.9300000071525574,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "BayesDel_noAF",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
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      "revel_prediction": null,
      "alphamissense_score": null,
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      "bayesdelnoaf_score": -0.93,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": -0.113,
      "phylop100way_prediction": "Benign",
      "spliceai_max_score": 0,
      "spliceai_max_prediction": "Benign",
      "dbscsnv_ada_score": null,
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      "apogee2_score": null,
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      "mitotip_score": null,
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      "acmg_score": -12,
      "acmg_classification": "Benign",
      "acmg_criteria": "BP4_Strong,BA1",
      "acmg_by_gene": [
        {
          "score": -12,
          "benign_score": 12,
          "pathogenic_score": 0,
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            "BA1"
          ],
          "verdict": "Benign",
          "transcript": "ENST00000652337.1",
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          "effects": [
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        {
          "score": -12,
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          ],
          "verdict": "Benign",
          "transcript": "NM_001304508.1",
          "gene_symbol": "ZBTB25",
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          "effects": [
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          ],
          "inheritance_mode": "AR",
          "hgvs_c": "c.174-7621C>T",
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      ],
      "clinvar_disease": "",
      "clinvar_classification": "",
      "clinvar_review_status": "",
      "clinvar_submissions_summary": "",
      "phenotype_combined": null,
      "pathogenicity_classification_combined": null,
      "custom_annotations": null
    }
  ],
  "message": null
}