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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: 8-85333605-AGT-A (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=8&pos=85333605&ref=AGT&alt=A&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "8",
      "pos": 85333605,
      "ref": "AGT",
      "alt": "A",
      "effect": "frameshift_variant",
      "transcript": "ENST00000523022.6",
      "consequences": [
        {
          "aa_ref": "H",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CA1",
          "gene_hgnc_id": 1368,
          "hgvs_c": "c.368_369delAC",
          "hgvs_p": "p.His123fs",
          "transcript": "NM_001128831.4",
          "protein_id": "NP_001122303.1",
          "transcript_support_level": null,
          "aa_start": 123,
          "aa_end": null,
          "aa_length": 261,
          "cds_start": 368,
          "cds_end": null,
          "cds_length": 786,
          "cdna_start": 461,
          "cdna_end": null,
          "cdna_length": 1830,
          "mane_select": "ENST00000523022.6",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "H",
          "aa_alt": null,
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CA1",
          "gene_hgnc_id": 1368,
          "hgvs_c": "c.368_369delAC",
          "hgvs_p": "p.His123fs",
          "transcript": "ENST00000523022.6",
          "protein_id": "ENSP00000429798.1",
          "transcript_support_level": 1,
          "aa_start": 123,
          "aa_end": null,
          "aa_length": 261,
          "cds_start": 368,
          "cds_end": null,
          "cds_length": 786,
          "cdna_start": 461,
          "cdna_end": null,
          "cdna_length": 1830,
          "mane_select": "NM_001128831.4",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "H",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CA1",
          "gene_hgnc_id": 1368,
          "hgvs_c": "c.368_369delAC",
          "hgvs_p": "p.His123fs",
          "transcript": "ENST00000523953.5",
          "protein_id": "ENSP00000430656.1",
          "transcript_support_level": 1,
          "aa_start": 123,
          "aa_end": null,
          "aa_length": 261,
          "cds_start": 368,
          "cds_end": null,
          "cds_length": 786,
          "cdna_start": 1416,
          "cdna_end": null,
          "cdna_length": 2785,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "H",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CA1",
          "gene_hgnc_id": 1368,
          "hgvs_c": "c.368_369delAC",
          "hgvs_p": "p.His123fs",
          "transcript": "ENST00000517618.5",
          "protein_id": "ENSP00000430861.1",
          "transcript_support_level": 1,
          "aa_start": 123,
          "aa_end": null,
          "aa_length": 250,
          "cds_start": 368,
          "cds_end": null,
          "cds_length": 753,
          "cdna_start": 448,
          "cdna_end": null,
          "cdna_length": 832,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "H",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CA1",
          "gene_hgnc_id": 1368,
          "hgvs_c": "c.368_369delAC",
          "hgvs_p": "p.His123fs",
          "transcript": "NM_001128829.4",
          "protein_id": "NP_001122301.1",
          "transcript_support_level": null,
          "aa_start": 123,
          "aa_end": null,
          "aa_length": 261,
          "cds_start": 368,
          "cds_end": null,
          "cds_length": 786,
          "cdna_start": 536,
          "cdna_end": null,
          "cdna_length": 1905,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "H",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CA1",
          "gene_hgnc_id": 1368,
          "hgvs_c": "c.368_369delAC",
          "hgvs_p": "p.His123fs",
          "transcript": "NM_001128830.4",
          "protein_id": "NP_001122302.1",
          "transcript_support_level": null,
          "aa_start": 123,
          "aa_end": null,
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          "cds_start": 368,
          "cds_end": null,
          "cds_length": 786,
          "cdna_start": 538,
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          "cdna_length": 1907,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "H",
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          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
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          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
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          "gene_symbol": "CA1",
          "gene_hgnc_id": 1368,
          "hgvs_c": "c.368_369delAC",
          "hgvs_p": "p.His123fs",
          "transcript": "NM_001164830.2",
          "protein_id": "NP_001158302.1",
          "transcript_support_level": null,
          "aa_start": 123,
          "aa_end": null,
          "aa_length": 261,
          "cds_start": 368,
          "cds_end": null,
          "cds_length": 786,
          "cdna_start": 448,
          "cdna_end": null,
          "cdna_length": 1817,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "H",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "CA1",
          "gene_hgnc_id": 1368,
          "hgvs_c": "c.368_369delAC",
          "hgvs_p": "p.His123fs",
          "transcript": "NM_001738.5",
          "protein_id": "NP_001729.1",
          "transcript_support_level": null,
          "aa_start": 123,
          "aa_end": null,
          "aa_length": 261,
          "cds_start": 368,
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          "cds_length": 786,
          "cdna_start": 515,
          "cdna_end": null,
          "cdna_length": 1884,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
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          "canonical": false,
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          "consequences": [
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          ],
          "exon_rank": 5,
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          "exon_count": 8,
          "intron_rank": null,
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          "gene_symbol": "CA1",
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          "hgvs_c": "c.368_369delAC",
          "hgvs_p": "p.His123fs",
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          "transcript_support_level": 5,
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          "cdna_start": 484,
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        {
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          "gene_symbol": "CA1",
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          "hgvs_c": "c.368_369delAC",
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          "hgvs_c": "n.91_92delAC",
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        },
        {
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          "gene_symbol": "CA1",
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        },
        {
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          "protein_coding": false,
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          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 6,
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          "intron_rank": null,
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          "gene_symbol": "CA1",
          "gene_hgnc_id": 1368,
          "hgvs_c": "n.*173_*174delAC",
          "hgvs_p": null,
          "transcript": "ENST00000517429.5",
          "protein_id": "ENSP00000430710.1",
          "transcript_support_level": 5,
          "aa_start": null,
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          "cds_end": null,
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          "cdna_start": null,
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          "cdna_length": 652,
          "mane_select": null,
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          "biotype": null,
          "feature": null
        }
      ],
      "gene_symbol": "CA1",
      "gene_hgnc_id": 1368,
      "dbsnp": "rs768769200",
      "frequency_reference_population": 0.0000041176327,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 6,
      "gnomad_exomes_af": 0.00000411763,
      "gnomad_genomes_af": null,
      "gnomad_exomes_ac": 6,
      "gnomad_genomes_ac": null,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": null,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": null,
      "computational_prediction_selected": null,
      "computational_source_selected": null,
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": null,
      "revel_prediction": null,
      "alphamissense_score": null,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": null,
      "bayesdelnoaf_prediction": null,
      "phylop100way_score": 4.476,
      "phylop100way_prediction": "Uncertain_significance",
      "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": 2,
      "acmg_classification": "Uncertain_significance",
      "acmg_criteria": "PM2",
      "acmg_by_gene": [
        {
          "score": 2,
          "benign_score": 0,
          "pathogenic_score": 2,
          "criteria": [
            "PM2"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "ENST00000523022.6",
          "gene_symbol": "CA1",
          "hgnc_id": 1368,
          "effects": [
            "frameshift_variant"
          ],
          "inheritance_mode": "AR",
          "hgvs_c": "c.368_369delAC",
          "hgvs_p": "p.His123fs"
        }
      ],
      "clinvar_disease": "Metabolic acidosis,Renal tubular acidosis,Rickets",
      "clinvar_classification": "Uncertain significance",
      "clinvar_review_status": "criteria provided, single submitter",
      "clinvar_submissions_summary": "US:1",
      "phenotype_combined": "Renal tubular acidosis;Rickets;Metabolic acidosis",
      "pathogenicity_classification_combined": "Uncertain significance",
      "custom_annotations": null
    }
  ],
  "message": null
}