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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: 10-26070215-G-A (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=10&pos=26070215&ref=G&alt=A&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "10",
      "pos": 26070215,
      "ref": "G",
      "alt": "A",
      "effect": "splice_region_variant,synonymous_variant",
      "transcript": "ENST00000642920.2",
      "consequences": [
        {
          "aa_ref": "Q",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 35,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYO3A",
          "gene_hgnc_id": 7601,
          "hgvs_c": "c.1275G>A",
          "hgvs_p": "p.Gln425Gln",
          "transcript": "NM_017433.5",
          "protein_id": "NP_059129.3",
          "transcript_support_level": null,
          "aa_start": 425,
          "aa_end": null,
          "aa_length": 1616,
          "cds_start": 1275,
          "cds_end": null,
          "cds_length": 4851,
          "cdna_start": 1479,
          "cdna_end": null,
          "cdna_length": 5624,
          "mane_select": "ENST00000642920.2",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "Q",
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 35,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYO3A",
          "gene_hgnc_id": 7601,
          "hgvs_c": "c.1275G>A",
          "hgvs_p": "p.Gln425Gln",
          "transcript": "ENST00000642920.2",
          "protein_id": "ENSP00000495965.1",
          "transcript_support_level": null,
          "aa_start": 425,
          "aa_end": null,
          "aa_length": 1616,
          "cds_start": 1275,
          "cds_end": null,
          "cds_length": 4851,
          "cdna_start": 1479,
          "cdna_end": null,
          "cdna_length": 5624,
          "mane_select": "NM_017433.5",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYO3A",
          "gene_hgnc_id": 7601,
          "hgvs_c": "c.1275G>A",
          "hgvs_p": "p.Gln425Gln",
          "transcript": "ENST00000543632.5",
          "protein_id": "ENSP00000445909.1",
          "transcript_support_level": 1,
          "aa_start": 425,
          "aa_end": null,
          "aa_length": 664,
          "cds_start": 1275,
          "cds_end": null,
          "cds_length": 1995,
          "cdna_start": 1335,
          "cdna_end": null,
          "cdna_length": 2203,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 35,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYO3A",
          "gene_hgnc_id": 7601,
          "hgvs_c": "c.1275G>A",
          "hgvs_p": "p.Gln425Gln",
          "transcript": "XM_011519498.3",
          "protein_id": "XP_011517800.1",
          "transcript_support_level": null,
          "aa_start": 425,
          "aa_end": null,
          "aa_length": 1616,
          "cds_start": 1275,
          "cds_end": null,
          "cds_length": 4851,
          "cdna_start": 1677,
          "cdna_end": null,
          "cdna_length": 5822,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 35,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYO3A",
          "gene_hgnc_id": 7601,
          "hgvs_c": "c.1275G>A",
          "hgvs_p": "p.Gln425Gln",
          "transcript": "XM_011519499.2",
          "protein_id": "XP_011517801.1",
          "transcript_support_level": null,
          "aa_start": 425,
          "aa_end": null,
          "aa_length": 1616,
          "cds_start": 1275,
          "cds_end": null,
          "cds_length": 4851,
          "cdna_start": 1784,
          "cdna_end": null,
          "cdna_length": 5929,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 14,
          "exon_rank_end": null,
          "exon_count": 36,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYO3A",
          "gene_hgnc_id": 7601,
          "hgvs_c": "c.1275G>A",
          "hgvs_p": "p.Gln425Gln",
          "transcript": "XM_011519500.3",
          "protein_id": "XP_011517802.1",
          "transcript_support_level": null,
          "aa_start": 425,
          "aa_end": null,
          "aa_length": 1616,
          "cds_start": 1275,
          "cds_end": null,
          "cds_length": 4851,
          "cdna_start": 1536,
          "cdna_end": null,
          "cdna_length": 5681,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 35,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYO3A",
          "gene_hgnc_id": 7601,
          "hgvs_c": "c.1275G>A",
          "hgvs_p": "p.Gln425Gln",
          "transcript": "XM_011519502.1",
          "protein_id": "XP_011517804.1",
          "transcript_support_level": null,
          "aa_start": 425,
          "aa_end": null,
          "aa_length": 1612,
          "cds_start": 1275,
          "cds_end": null,
          "cds_length": 4839,
          "cdna_start": 1479,
          "cdna_end": null,
          "cdna_length": 5362,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYO3A",
          "gene_hgnc_id": 7601,
          "hgvs_c": "c.1275G>A",
          "hgvs_p": "p.Gln425Gln",
          "transcript": "XM_011519503.2",
          "protein_id": "XP_011517805.1",
          "transcript_support_level": null,
          "aa_start": 425,
          "aa_end": null,
          "aa_length": 1568,
          "cds_start": 1275,
          "cds_end": null,
          "cds_length": 4707,
          "cdna_start": 1479,
          "cdna_end": null,
          "cdna_length": 5480,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 32,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYO3A",
          "gene_hgnc_id": 7601,
          "hgvs_c": "c.1275G>A",
          "hgvs_p": "p.Gln425Gln",
          "transcript": "XM_047425355.1",
          "protein_id": "XP_047281311.1",
          "transcript_support_level": null,
          "aa_start": 425,
          "aa_end": null,
          "aa_length": 1565,
          "cds_start": 1275,
          "cds_end": null,
          "cds_length": 4698,
          "cdna_start": 1392,
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          "mane_select": null,
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": null,
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          "gene_symbol": "MYO3A",
          "gene_hgnc_id": 7601,
          "hgvs_c": "c.1119G>A",
          "hgvs_p": "p.Gln373Gln",
          "transcript": "XM_047425356.1",
          "protein_id": "XP_047281312.1",
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          "cdna_start": 1259,
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        {
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          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
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          "exon_count": 33,
          "intron_rank": null,
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          "gene_symbol": "MYO3A",
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          "hgvs_c": "c.1119G>A",
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        {
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          "intron_rank": null,
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          "gene_symbol": "MYO3A",
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        },
        {
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          "gene_symbol": "MYO3A",
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        },
        {
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          ],
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        {
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        {
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          "gene_symbol": "MYO3A",
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        },
        {
          "aa_ref": "Q",
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          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
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          ],
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          "exon_rank_end": null,
          "exon_count": 30,
          "intron_rank": null,
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          "gene_symbol": "MYO3A",
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          "hgvs_c": "c.1275G>A",
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          "transcript": "XM_011519510.2",
          "protein_id": "XP_011517812.1",
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          "aa_length": 1135,
          "cds_start": 1275,
          "cds_end": null,
          "cds_length": 3408,
          "cdna_start": 1479,
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          "cdna_length": 3709,
          "mane_select": null,
          "mane_plus": null,
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          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "Q",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 27,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYO3A",
          "gene_hgnc_id": 7601,
          "hgvs_c": "c.1275G>A",
          "hgvs_p": "p.Gln425Gln",
          "transcript": "XM_011519511.3",
          "protein_id": "XP_011517813.1",
          "transcript_support_level": null,
          "aa_start": 425,
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          "aa_length": 1009,
          "cds_start": 1275,
          "cds_end": null,
          "cds_length": 3030,
          "cdna_start": 1479,
          "cdna_end": null,
          "cdna_length": 3751,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
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        },
        {
          "aa_ref": null,
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          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 27,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYO3A",
          "gene_hgnc_id": 7601,
          "hgvs_c": "n.1479G>A",
          "hgvs_p": null,
          "transcript": "ENST00000642197.1",
          "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": 3376,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
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          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 30,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYO3A",
          "gene_hgnc_id": 7601,
          "hgvs_c": "n.1275G>A",
          "hgvs_p": null,
          "transcript": "ENST00000647478.1",
          "protein_id": "ENSP00000493932.1",
          "transcript_support_level": null,
          "aa_start": null,
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          "aa_length": null,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 3846,
          "mane_select": null,
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          "feature": null
        },
        {
          "aa_ref": null,
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          "protein_coding": false,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 13,
          "exon_rank_end": null,
          "exon_count": 32,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYO3A",
          "gene_hgnc_id": 7601,
          "hgvs_c": "n.1479G>A",
          "hgvs_p": null,
          "transcript": "XR_930494.1",
          "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": 4645,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        }
      ],
      "gene_symbol": "MYO3A",
      "gene_hgnc_id": 7601,
      "dbsnp": "rs77562287",
      "frequency_reference_population": 0.00025603073,
      "hom_count_reference_population": 4,
      "allele_count_reference_population": 411,
      "gnomad_exomes_af": 0.000139689,
      "gnomad_genomes_af": 0.00136797,
      "gnomad_exomes_ac": 203,
      "gnomad_genomes_ac": 208,
      "gnomad_exomes_homalt": 3,
      "gnomad_genomes_homalt": 1,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": -0.1899999976158142,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "BayesDel_noAF",
      "splice_score_selected": 0.9539999961853027,
      "splice_prediction_selected": "Pathogenic",
      "splice_source_selected": "dbscSNV1_RF",
      "revel_score": null,
      "revel_prediction": null,
      "alphamissense_score": null,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.19,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 7.774,
      "phylop100way_prediction": "Pathogenic",
      "spliceai_max_score": 0.65,
      "spliceai_max_prediction": "Pathogenic",
      "dbscsnv_ada_score": 0.999894660802379,
      "dbscsnv_ada_prediction": "Pathogenic",
      "apogee2_score": null,
      "apogee2_prediction": null,
      "mitotip_score": null,
      "mitotip_prediction": null,
      "acmg_score": -7,
      "acmg_classification": "Benign",
      "acmg_criteria": "PP3_Moderate,BP6,BS1,BS2",
      "acmg_by_gene": [
        {
          "score": -7,
          "benign_score": 9,
          "pathogenic_score": 2,
          "criteria": [
            "PP3_Moderate",
            "BP6",
            "BS1",
            "BS2"
          ],
          "verdict": "Benign",
          "transcript": "ENST00000642920.2",
          "gene_symbol": "MYO3A",
          "hgnc_id": 7601,
          "effects": [
            "splice_region_variant",
            "synonymous_variant"
          ],
          "inheritance_mode": "AR,SD,AD",
          "hgvs_c": "c.1275G>A",
          "hgvs_p": "p.Gln425Gln"
        }
      ],
      "clinvar_disease": "MYO3A-related disorder,not provided,not specified",
      "clinvar_classification": "Conflicting classifications of pathogenicity",
      "clinvar_review_status": "criteria provided, conflicting classifications",
      "clinvar_submissions_summary": "US:1 LB:3",
      "phenotype_combined": "not specified|not provided|MYO3A-related disorder",
      "pathogenicity_classification_combined": "Conflicting classifications of pathogenicity",
      "custom_annotations": null
    }
  ],
  "message": null
}