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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: 16-15737471-C-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=16&pos=15737471&ref=C&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "16",
      "pos": 15737471,
      "ref": "C",
      "alt": "T",
      "effect": "missense_variant",
      "transcript": "NM_001040114.2",
      "consequences": [
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 25,
          "exon_rank_end": null,
          "exon_count": 41,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYH11",
          "gene_hgnc_id": 7569,
          "hgvs_c": "c.3271G>A",
          "hgvs_p": "p.Glu1091Lys",
          "transcript": "NM_002474.3",
          "protein_id": "NP_002465.1",
          "transcript_support_level": null,
          "aa_start": 1091,
          "aa_end": null,
          "aa_length": 1972,
          "cds_start": 3271,
          "cds_end": null,
          "cds_length": 5919,
          "cdna_start": 3376,
          "cdna_end": null,
          "cdna_length": 6880,
          "mane_select": "ENST00000300036.6",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_002474.3"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 25,
          "exon_rank_end": null,
          "exon_count": 41,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYH11",
          "gene_hgnc_id": 7569,
          "hgvs_c": "c.3271G>A",
          "hgvs_p": "p.Glu1091Lys",
          "transcript": "ENST00000300036.6",
          "protein_id": "ENSP00000300036.5",
          "transcript_support_level": 1,
          "aa_start": 1091,
          "aa_end": null,
          "aa_length": 1972,
          "cds_start": 3271,
          "cds_end": null,
          "cds_length": 5919,
          "cdna_start": 3376,
          "cdna_end": null,
          "cdna_length": 6880,
          "mane_select": "NM_002474.3",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000300036.6"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 26,
          "exon_rank_end": null,
          "exon_count": 43,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYH11",
          "gene_hgnc_id": 7569,
          "hgvs_c": "c.3292G>A",
          "hgvs_p": "p.Glu1098Lys",
          "transcript": "NM_001040113.2",
          "protein_id": "NP_001035202.1",
          "transcript_support_level": null,
          "aa_start": 1098,
          "aa_end": null,
          "aa_length": 1945,
          "cds_start": 3292,
          "cds_end": null,
          "cds_length": 5838,
          "cdna_start": 3397,
          "cdna_end": null,
          "cdna_length": 6940,
          "mane_select": null,
          "mane_plus": "ENST00000452625.7",
          "biotype": "protein_coding",
          "feature": "NM_001040113.2"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 26,
          "exon_rank_end": null,
          "exon_count": 43,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYH11",
          "gene_hgnc_id": 7569,
          "hgvs_c": "c.3292G>A",
          "hgvs_p": "p.Glu1098Lys",
          "transcript": "ENST00000452625.7",
          "protein_id": "ENSP00000407821.2",
          "transcript_support_level": 1,
          "aa_start": 1098,
          "aa_end": null,
          "aa_length": 1945,
          "cds_start": 3292,
          "cds_end": null,
          "cds_length": 5838,
          "cdna_start": 3397,
          "cdna_end": null,
          "cdna_length": 6940,
          "mane_select": null,
          "mane_plus": "NM_001040113.2",
          "biotype": "protein_coding",
          "feature": "ENST00000452625.7"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 26,
          "exon_rank_end": null,
          "exon_count": 42,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYH11",
          "gene_hgnc_id": 7569,
          "hgvs_c": "c.3292G>A",
          "hgvs_p": "p.Glu1098Lys",
          "transcript": "ENST00000396324.7",
          "protein_id": "ENSP00000379616.3",
          "transcript_support_level": 1,
          "aa_start": 1098,
          "aa_end": null,
          "aa_length": 1979,
          "cds_start": 3292,
          "cds_end": null,
          "cds_length": 5940,
          "cdna_start": 3380,
          "cdna_end": null,
          "cdna_length": 6847,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000396324.7"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 25,
          "exon_rank_end": null,
          "exon_count": 42,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYH11",
          "gene_hgnc_id": 7569,
          "hgvs_c": "c.3271G>A",
          "hgvs_p": "p.Glu1091Lys",
          "transcript": "ENST00000576790.7",
          "protein_id": "ENSP00000458731.1",
          "transcript_support_level": 1,
          "aa_start": 1091,
          "aa_end": null,
          "aa_length": 1938,
          "cds_start": 3271,
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          "cds_length": 5817,
          "cdna_start": 3342,
          "cdna_end": null,
          "cdna_length": 5907,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000576790.7"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 26,
          "exon_rank_end": null,
          "exon_count": 42,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYH11",
          "gene_hgnc_id": 7569,
          "hgvs_c": "c.3319G>A",
          "hgvs_p": "p.Glu1107Lys",
          "transcript": "ENST00000911137.1",
          "protein_id": "ENSP00000581196.1",
          "transcript_support_level": null,
          "aa_start": 1107,
          "aa_end": null,
          "aa_length": 1988,
          "cds_start": 3319,
          "cds_end": null,
          "cds_length": 5967,
          "cdna_start": 3426,
          "cdna_end": null,
          "cdna_length": 6139,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000911137.1"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 25,
          "exon_rank_end": null,
          "exon_count": 41,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYH11",
          "gene_hgnc_id": 7569,
          "hgvs_c": "c.3271G>A",
          "hgvs_p": "p.Glu1091Lys",
          "transcript": "ENST00000911136.1",
          "protein_id": "ENSP00000581195.1",
          "transcript_support_level": null,
          "aa_start": 1091,
          "aa_end": null,
          "aa_length": 1985,
          "cds_start": 3271,
          "cds_end": null,
          "cds_length": 5958,
          "cdna_start": 3378,
          "cdna_end": null,
          "cdna_length": 6130,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000911136.1"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 26,
          "exon_rank_end": null,
          "exon_count": 42,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYH11",
          "gene_hgnc_id": 7569,
          "hgvs_c": "c.3298G>A",
          "hgvs_p": "p.Glu1100Lys",
          "transcript": "ENST00000963704.1",
          "protein_id": "ENSP00000633763.1",
          "transcript_support_level": null,
          "aa_start": 1100,
          "aa_end": null,
          "aa_length": 1981,
          "cds_start": 3298,
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          "cds_length": 5946,
          "cdna_start": 3402,
          "cdna_end": null,
          "cdna_length": 6078,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000963704.1"
        },
        {
          "aa_ref": "E",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
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          ],
          "exon_rank": 26,
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          "exon_count": 42,
          "intron_rank": null,
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          "gene_symbol": "MYH11",
          "gene_hgnc_id": 7569,
          "hgvs_c": "c.3292G>A",
          "hgvs_p": "p.Glu1098Lys",
          "transcript": "NM_001040114.2",
          "protein_id": "NP_001035203.1",
          "transcript_support_level": null,
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        {
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          "intron_rank": null,
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          "gene_symbol": "MYH11",
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          "hgvs_c": "c.3292G>A",
          "hgvs_p": "p.Glu1098Lys",
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          "gene_symbol": "MYH11",
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        {
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        {
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        {
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        },
        {
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          "exon_count": 42,
          "intron_rank": null,
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          "gene_symbol": "MYH11",
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          "hgvs_c": "c.3271G>A",
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          "biotype": "protein_coding",
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        {
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        {
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          "consequences": [
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        {
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          "gene_symbol": "MYH11",
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          "hgvs_c": "n.*1454G>A",
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          "transcript": "ENST00000652121.1",
          "protein_id": "ENSP00000498314.1",
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          "biotype": "nonsense_mediated_decay",
          "feature": "ENST00000652121.1"
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      ],
      "gene_symbol": "MYH11",
      "gene_hgnc_id": 7569,
      "dbsnp": "rs201443445",
      "frequency_reference_population": 6.8456393e-7,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 1,
      "gnomad_exomes_af": 6.84564e-7,
      "gnomad_genomes_af": null,
      "gnomad_exomes_ac": 1,
      "gnomad_genomes_ac": null,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": null,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.9068253040313721,
      "computational_prediction_selected": "Pathogenic",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.934,
      "revel_prediction": "Pathogenic",
      "alphamissense_score": 0.823,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": 0.27,
      "bayesdelnoaf_prediction": "Pathogenic",
      "phylop100way_score": 7.848,
      "phylop100way_prediction": "Pathogenic",
      "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": 4,
      "acmg_classification": "Uncertain_significance",
      "acmg_criteria": "PM2,PP3_Moderate",
      "acmg_by_gene": [
        {
          "score": 4,
          "benign_score": 0,
          "pathogenic_score": 4,
          "criteria": [
            "PM2",
            "PP3_Moderate"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "NM_001040114.2",
          "gene_symbol": "MYH11",
          "hgnc_id": 7569,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AD,AR,Unknown",
          "hgvs_c": "c.3292G>A",
          "hgvs_p": "p.Glu1098Lys"
        }
      ],
      "clinvar_disease": " familial thoracic 4,Aortic aneurysm,Familial thoracic aortic aneurysm and aortic dissection",
      "clinvar_classification": "Uncertain significance",
      "clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
      "clinvar_submissions_summary": "US:2",
      "phenotype_combined": "Aortic aneurysm, familial thoracic 4|Familial thoracic aortic aneurysm and aortic dissection",
      "pathogenicity_classification_combined": "Uncertain significance",
      "custom_annotations": null
    }
  ],
  "message": null
}
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