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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: 6-2959279-C-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=6&pos=2959279&ref=C&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "6",
      "pos": 2959279,
      "ref": "C",
      "alt": "T",
      "effect": "synonymous_variant",
      "transcript": "ENST00000380539.7",
      "consequences": [
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SERPINB6",
          "gene_hgnc_id": 8950,
          "hgvs_c": "c.54G>A",
          "hgvs_p": "p.Thr18Thr",
          "transcript": "NM_004568.6",
          "protein_id": "NP_004559.4",
          "transcript_support_level": null,
          "aa_start": 18,
          "aa_end": null,
          "aa_length": 376,
          "cds_start": 54,
          "cds_end": null,
          "cds_length": 1131,
          "cdna_start": 99,
          "cdna_end": null,
          "cdna_length": 1315,
          "mane_select": "ENST00000380539.7",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SERPINB6",
          "gene_hgnc_id": 8950,
          "hgvs_c": "c.54G>A",
          "hgvs_p": "p.Thr18Thr",
          "transcript": "ENST00000380539.7",
          "protein_id": "ENSP00000369912.2",
          "transcript_support_level": 3,
          "aa_start": 18,
          "aa_end": null,
          "aa_length": 376,
          "cds_start": 54,
          "cds_end": null,
          "cds_length": 1131,
          "cdna_start": 99,
          "cdna_end": null,
          "cdna_length": 1315,
          "mane_select": "NM_004568.6",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SERPINB6",
          "gene_hgnc_id": 8950,
          "hgvs_c": "c.54G>A",
          "hgvs_p": "p.Thr18Thr",
          "transcript": "ENST00000380520.6",
          "protein_id": "ENSP00000369891.1",
          "transcript_support_level": 1,
          "aa_start": 18,
          "aa_end": null,
          "aa_length": 376,
          "cds_start": 54,
          "cds_end": null,
          "cds_length": 1131,
          "cdna_start": 134,
          "cdna_end": null,
          "cdna_length": 1313,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SERPINB6",
          "gene_hgnc_id": 8950,
          "hgvs_c": "c.54G>A",
          "hgvs_p": "p.Thr18Thr",
          "transcript": "ENST00000380524.5",
          "protein_id": "ENSP00000369896.1",
          "transcript_support_level": 1,
          "aa_start": 18,
          "aa_end": null,
          "aa_length": 376,
          "cds_start": 54,
          "cds_end": null,
          "cds_length": 1131,
          "cdna_start": 279,
          "cdna_end": null,
          "cdna_length": 1495,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SERPINB6",
          "gene_hgnc_id": 8950,
          "hgvs_c": "c.54G>A",
          "hgvs_p": "p.Thr18Thr",
          "transcript": "ENST00000380546.7",
          "protein_id": "ENSP00000369919.3",
          "transcript_support_level": 1,
          "aa_start": 18,
          "aa_end": null,
          "aa_length": 376,
          "cds_start": 54,
          "cds_end": null,
          "cds_length": 1131,
          "cdna_start": 159,
          "cdna_end": null,
          "cdna_length": 1375,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SERPINB6",
          "gene_hgnc_id": 8950,
          "hgvs_c": "c.111G>A",
          "hgvs_p": "p.Thr37Thr",
          "transcript": "NM_001271823.2",
          "protein_id": "NP_001258752.1",
          "transcript_support_level": null,
          "aa_start": 37,
          "aa_end": null,
          "aa_length": 395,
          "cds_start": 111,
          "cds_end": null,
          "cds_length": 1188,
          "cdna_start": 596,
          "cdna_end": null,
          "cdna_length": 1812,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SERPINB6",
          "gene_hgnc_id": 8950,
          "hgvs_c": "c.111G>A",
          "hgvs_p": "p.Thr37Thr",
          "transcript": "ENST00000612421.3",
          "protein_id": "ENSP00000484343.1",
          "transcript_support_level": 2,
          "aa_start": 37,
          "aa_end": null,
          "aa_length": 395,
          "cds_start": 111,
          "cds_end": null,
          "cds_length": 1188,
          "cdna_start": 355,
          "cdna_end": null,
          "cdna_length": 1566,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SERPINB6",
          "gene_hgnc_id": 8950,
          "hgvs_c": "c.96G>A",
          "hgvs_p": "p.Thr32Thr",
          "transcript": "NM_001271822.2",
          "protein_id": "NP_001258751.1",
          "transcript_support_level": null,
          "aa_start": 32,
          "aa_end": null,
          "aa_length": 390,
          "cds_start": 96,
          "cds_end": null,
          "cds_length": 1173,
          "cdna_start": 515,
          "cdna_end": null,
          "cdna_length": 1731,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SERPINB6",
          "gene_hgnc_id": 8950,
          "hgvs_c": "c.66G>A",
          "hgvs_p": "p.Thr22Thr",
          "transcript": "NM_001195291.3",
          "protein_id": "NP_001182220.2",
          "transcript_support_level": null,
          "aa_start": 22,
          "aa_end": null,
          "aa_length": 380,
          "cds_start": 66,
          "cds_end": null,
          "cds_length": 1143,
          "cdna_start": 234,
          "cdna_end": null,
          "cdna_length": 1450,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SERPINB6",
          "gene_hgnc_id": 8950,
          "hgvs_c": "c.66G>A",
          "hgvs_p": "p.Thr22Thr",
          "transcript": "NM_001374515.1",
          "protein_id": "NP_001361444.1",
          "transcript_support_level": null,
          "aa_start": 22,
          "aa_end": null,
          "aa_length": 380,
          "cds_start": 66,
          "cds_end": null,
          "cds_length": 1143,
          "cdna_start": 276,
          "cdna_end": null,
          "cdna_length": 1492,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
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          ],
          "exon_rank": 3,
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          "exon_count": 8,
          "intron_rank": null,
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          "gene_symbol": "SERPINB6",
          "gene_hgnc_id": 8950,
          "hgvs_c": "c.66G>A",
          "hgvs_p": "p.Thr22Thr",
          "transcript": "ENST00000616722.4",
          "protein_id": "ENSP00000481398.1",
          "transcript_support_level": 2,
          "aa_start": 22,
          "aa_end": null,
          "aa_length": 380,
          "cds_start": 66,
          "cds_end": null,
          "cds_length": 1143,
          "cdna_start": 832,
          "cdna_end": null,
          "cdna_length": 2036,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 3,
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          "exon_count": 8,
          "intron_rank": null,
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          "gene_symbol": "SERPINB6",
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          "hgvs_c": "c.66G>A",
          "hgvs_p": "p.Thr22Thr",
          "transcript": "ENST00000645580.1",
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          "cds_start": 66,
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          "cdna_start": 407,
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          "mane_select": null,
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        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
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          ],
          "exon_rank": 2,
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          "gene_hgnc_id": 8950,
          "hgvs_c": "c.54G>A",
          "hgvs_p": "p.Thr18Thr",
          "transcript": "NM_001271824.2",
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        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
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          ],
          "exon_rank": 2,
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          "intron_rank": null,
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          "gene_symbol": "SERPINB6",
          "gene_hgnc_id": 8950,
          "hgvs_c": "c.54G>A",
          "hgvs_p": "p.Thr18Thr",
          "transcript": "NM_001271825.2",
          "protein_id": "NP_001258754.1",
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        },
        {
          "aa_ref": "T",
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        {
          "aa_ref": "T",
          "aa_alt": "T",
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          "strand": false,
          "consequences": [
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          ],
          "exon_rank": 2,
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          "intron_rank": null,
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          "gene_symbol": "SERPINB6",
          "gene_hgnc_id": 8950,
          "hgvs_c": "c.54G>A",
          "hgvs_p": "p.Thr18Thr",
          "transcript": "NM_001297700.2",
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        },
        {
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          "canonical": false,
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          "consequences": [
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          "intron_rank": null,
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          "gene_symbol": "SERPINB6",
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          "hgvs_c": "c.54G>A",
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          "transcript": "NM_001374516.1",
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        {
          "aa_ref": "T",
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          ],
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          "gene_symbol": "SERPINB6",
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        },
        {
          "aa_ref": "T",
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          "strand": false,
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        },
        {
          "aa_ref": "T",
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          "protein_coding": true,
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          ],
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          "intron_rank": null,
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          "gene_symbol": "SERPINB6",
          "gene_hgnc_id": 8950,
          "hgvs_c": "c.54G>A",
          "hgvs_p": "p.Thr18Thr",
          "transcript": "ENST00000644178.1",
          "protein_id": "ENSP00000496073.1",
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          "cdna_start": 4408,
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          "cdna_length": 5620,
          "mane_select": null,
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "T",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "synonymous_variant"
          ],
          "exon_rank": 3,
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          "exon_count": 8,
          "intron_rank": null,
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        {
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          "gene_symbol": "SERPINB6",
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      ],
      "gene_symbol": "SERPINB6",
      "gene_hgnc_id": 8950,
      "dbsnp": "rs2236277",
      "frequency_reference_population": 0.31689245,
      "hom_count_reference_population": 83768,
      "allele_count_reference_population": 511408,
      "gnomad_exomes_af": 0.319133,
      "gnomad_genomes_af": 0.295351,
      "gnomad_exomes_ac": 466494,
      "gnomad_genomes_ac": 44914,
      "gnomad_exomes_homalt": 76474,
      "gnomad_genomes_homalt": 7294,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.014999999664723873,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "REVEL",
      "splice_score_selected": 0.10000000149011612,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.015,
      "revel_prediction": "Benign",
      "alphamissense_score": null,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.54,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": -1.584,
      "phylop100way_prediction": "Benign",
      "spliceai_max_score": 0.1,
      "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": -21,
      "acmg_classification": "Benign",
      "acmg_criteria": "BP4_Strong,BP6_Very_Strong,BP7,BA1",
      "acmg_by_gene": [
        {
          "score": -21,
          "benign_score": 21,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Strong",
            "BP6_Very_Strong",
            "BP7",
            "BA1"
          ],
          "verdict": "Benign",
          "transcript": "ENST00000380539.7",
          "gene_symbol": "SERPINB6",
          "hgnc_id": 8950,
          "effects": [
            "synonymous_variant"
          ],
          "inheritance_mode": "AR",
          "hgvs_c": "c.54G>A",
          "hgvs_p": "p.Thr18Thr"
        }
      ],
      "clinvar_disease": "Autosomal recessive nonsyndromic hearing loss 91,not provided,not specified",
      "clinvar_classification": "Benign",
      "clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
      "clinvar_submissions_summary": "B:5",
      "phenotype_combined": "not specified|Autosomal recessive nonsyndromic hearing loss 91|not provided",
      "pathogenicity_classification_combined": "Benign",
      "custom_annotations": null
    }
  ],
  "message": null
}