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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: 17-82237416-C-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=17&pos=82237416&ref=C&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "17",
      "pos": 82237416,
      "ref": "C",
      "alt": "T",
      "effect": "missense_variant",
      "transcript": "ENST00000582743.6",
      "consequences": [
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC16A3",
          "gene_hgnc_id": 10924,
          "hgvs_c": "c.646C>T",
          "hgvs_p": "p.Arg216Cys",
          "transcript": "NM_004207.4",
          "protein_id": "NP_004198.1",
          "transcript_support_level": null,
          "aa_start": 216,
          "aa_end": null,
          "aa_length": 465,
          "cds_start": 646,
          "cds_end": null,
          "cds_length": 1398,
          "cdna_start": 737,
          "cdna_end": null,
          "cdna_length": 2599,
          "mane_select": "ENST00000582743.6",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC16A3",
          "gene_hgnc_id": 10924,
          "hgvs_c": "c.646C>T",
          "hgvs_p": "p.Arg216Cys",
          "transcript": "ENST00000582743.6",
          "protein_id": "ENSP00000462405.1",
          "transcript_support_level": 1,
          "aa_start": 216,
          "aa_end": null,
          "aa_length": 465,
          "cds_start": 646,
          "cds_end": null,
          "cds_length": 1398,
          "cdna_start": 737,
          "cdna_end": null,
          "cdna_length": 2599,
          "mane_select": "NM_004207.4",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC16A3",
          "gene_hgnc_id": 10924,
          "hgvs_c": "c.646C>T",
          "hgvs_p": "p.Arg216Cys",
          "transcript": "ENST00000581287.5",
          "protein_id": "ENSP00000463978.1",
          "transcript_support_level": 1,
          "aa_start": 216,
          "aa_end": null,
          "aa_length": 465,
          "cds_start": 646,
          "cds_end": null,
          "cds_length": 1398,
          "cdna_start": 2968,
          "cdna_end": null,
          "cdna_length": 4830,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC16A3",
          "gene_hgnc_id": 10924,
          "hgvs_c": "c.646C>T",
          "hgvs_p": "p.Arg216Cys",
          "transcript": "NM_001042422.3",
          "protein_id": "NP_001035887.1",
          "transcript_support_level": null,
          "aa_start": 216,
          "aa_end": null,
          "aa_length": 465,
          "cds_start": 646,
          "cds_end": null,
          "cds_length": 1398,
          "cdna_start": 767,
          "cdna_end": null,
          "cdna_length": 2629,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC16A3",
          "gene_hgnc_id": 10924,
          "hgvs_c": "c.646C>T",
          "hgvs_p": "p.Arg216Cys",
          "transcript": "NM_001042423.3",
          "protein_id": "NP_001035888.1",
          "transcript_support_level": null,
          "aa_start": 216,
          "aa_end": null,
          "aa_length": 465,
          "cds_start": 646,
          "cds_end": null,
          "cds_length": 1398,
          "cdna_start": 800,
          "cdna_end": null,
          "cdna_length": 2662,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC16A3",
          "gene_hgnc_id": 10924,
          "hgvs_c": "c.646C>T",
          "hgvs_p": "p.Arg216Cys",
          "transcript": "NM_001206950.2",
          "protein_id": "NP_001193879.1",
          "transcript_support_level": null,
          "aa_start": 216,
          "aa_end": null,
          "aa_length": 465,
          "cds_start": 646,
          "cds_end": null,
          "cds_length": 1398,
          "cdna_start": 783,
          "cdna_end": null,
          "cdna_length": 2645,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC16A3",
          "gene_hgnc_id": 10924,
          "hgvs_c": "c.646C>T",
          "hgvs_p": "p.Arg216Cys",
          "transcript": "NM_001206951.2",
          "protein_id": "NP_001193880.1",
          "transcript_support_level": null,
          "aa_start": 216,
          "aa_end": null,
          "aa_length": 465,
          "cds_start": 646,
          "cds_end": null,
          "cds_length": 1398,
          "cdna_start": 774,
          "cdna_end": null,
          "cdna_length": 2636,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC16A3",
          "gene_hgnc_id": 10924,
          "hgvs_c": "c.646C>T",
          "hgvs_p": "p.Arg216Cys",
          "transcript": "NM_001206952.2",
          "protein_id": "NP_001193881.1",
          "transcript_support_level": null,
          "aa_start": 216,
          "aa_end": null,
          "aa_length": 465,
          "cds_start": 646,
          "cds_end": null,
          "cds_length": 1398,
          "cdna_start": 741,
          "cdna_end": null,
          "cdna_length": 2603,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
          "aa_alt": "C",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC16A3",
          "gene_hgnc_id": 10924,
          "hgvs_c": "c.646C>T",
          "hgvs_p": "p.Arg216Cys",
          "transcript": "ENST00000392339.6",
          "protein_id": "ENSP00000376150.1",
          "transcript_support_level": 5,
          "aa_start": 216,
          "aa_end": null,
          "aa_length": 465,
          "cds_start": 646,
          "cds_end": null,
          "cds_length": 1398,
          "cdna_start": 800,
          "cdna_end": null,
          "cdna_length": 2662,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "R",
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          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC16A3",
          "gene_hgnc_id": 10924,
          "hgvs_c": "c.646C>T",
          "hgvs_p": "p.Arg216Cys",
          "transcript": "ENST00000392341.6",
          "protein_id": "ENSP00000376152.1",
          "transcript_support_level": 5,
          "aa_start": 216,
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          "cds_start": 646,
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          "cds_length": 1398,
          "cdna_start": 797,
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          "cdna_length": 2659,
          "mane_select": null,
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        {
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          "consequences": [
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          ],
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          "gene_symbol": "SLC16A3",
          "gene_hgnc_id": 10924,
          "hgvs_c": "c.646C>T",
          "hgvs_p": "p.Arg216Cys",
          "transcript": "ENST00000580189.6",
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          "transcript_support_level": 5,
          "aa_start": 216,
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          "aa_length": 465,
          "cds_start": 646,
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          "cdna_start": 849,
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          "mane_select": null,
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        {
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          "protein_coding": true,
          "strand": true,
          "consequences": [
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          "gene_symbol": "SLC16A3",
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        {
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          ],
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          "gene_symbol": "SLC16A3",
          "gene_hgnc_id": 10924,
          "hgvs_c": "c.646C>T",
          "hgvs_p": "p.Arg216Cys",
          "transcript": "ENST00000617373.5",
          "protein_id": "ENSP00000483212.1",
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        {
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          "intron_rank": null,
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          "gene_symbol": "SLC16A3",
          "gene_hgnc_id": 10924,
          "hgvs_c": "c.646C>T",
          "hgvs_p": "p.Arg216Cys",
          "transcript": "ENST00000619321.2",
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        {
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          "hgvs_c": "c.568C>T",
          "hgvs_p": "p.Arg190Cys",
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        {
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          "intron_rank": null,
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          "gene_symbol": "SLC16A3",
          "gene_hgnc_id": 10924,
          "hgvs_c": "c.502C>T",
          "hgvs_p": "p.Arg168Cys",
          "transcript": "ENST00000578684.6",
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        {
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          "gene_symbol": "SLC16A3",
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          "transcript": "ENST00000580098.6",
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        {
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          "gene_symbol": "SLC16A3",
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          "hgvs_c": "c.247C>T",
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        {
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        {
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          "gene_symbol": "SLC16A3",
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          "hgvs_c": "c.646C>T",
          "hgvs_p": "p.Arg216Cys",
          "transcript": "XM_047437036.1",
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        },
        {
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          "intron_rank": null,
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          "gene_symbol": "SLC16A3",
          "gene_hgnc_id": 10924,
          "hgvs_c": "c.646C>T",
          "hgvs_p": "p.Arg216Cys",
          "transcript": "XM_047437037.1",
          "protein_id": "XP_047292993.1",
          "transcript_support_level": null,
          "aa_start": 216,
          "aa_end": null,
          "aa_length": 465,
          "cds_start": 646,
          "cds_end": null,
          "cds_length": 1398,
          "cdna_start": 2956,
          "cdna_end": null,
          "cdna_length": 4818,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "splice_region_variant",
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 2,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC16A3",
          "gene_hgnc_id": 10924,
          "hgvs_c": "n.678C>T",
          "hgvs_p": null,
          "transcript": "ENST00000578810.1",
          "protein_id": null,
          "transcript_support_level": 2,
          "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": 678,
          "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": 3,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "SLC16A3",
          "gene_hgnc_id": 10924,
          "hgvs_c": "c.120+1288C>T",
          "hgvs_p": null,
          "transcript": "ENST00000582715.1",
          "protein_id": "ENSP00000464326.1",
          "transcript_support_level": 5,
          "aa_start": null,
          "aa_end": null,
          "aa_length": 78,
          "cds_start": -4,
          "cds_end": null,
          "cds_length": 239,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": 279,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "downstream_gene_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 3,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC16A3",
          "gene_hgnc_id": 10924,
          "hgvs_c": "n.*113C>T",
          "hgvs_p": null,
          "transcript": "ENST00000579572.1",
          "protein_id": null,
          "transcript_support_level": 3,
          "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": 863,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "downstream_gene_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 4,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "SLC16A3",
          "gene_hgnc_id": 10924,
          "hgvs_c": "n.*134C>T",
          "hgvs_p": null,
          "transcript": "ENST00000584781.5",
          "protein_id": null,
          "transcript_support_level": 4,
          "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": 562,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        }
      ],
      "gene_symbol": "SLC16A3",
      "gene_hgnc_id": 10924,
      "dbsnp": "rs750915194",
      "frequency_reference_population": 0.00014451916,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 227,
      "gnomad_exomes_af": 0.000150156,
      "gnomad_genomes_af": 0.0000919842,
      "gnomad_exomes_ac": 213,
      "gnomad_genomes_ac": 14,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.20810529589653015,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.35,
      "revel_prediction": "Uncertain_significance",
      "alphamissense_score": 0.2366,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.2,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 3.241,
      "phylop100way_prediction": "Benign",
      "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": "Likely_benign",
      "acmg_criteria": "BP4_Moderate",
      "acmg_by_gene": [
        {
          "score": -2,
          "benign_score": 2,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Moderate"
          ],
          "verdict": "Likely_benign",
          "transcript": "ENST00000582743.6",
          "gene_symbol": "SLC16A3",
          "hgnc_id": 10924,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AR",
          "hgvs_c": "c.646C>T",
          "hgvs_p": "p.Arg216Cys"
        }
      ],
      "clinvar_disease": "not specified",
      "clinvar_classification": "Uncertain significance",
      "clinvar_review_status": "criteria provided, single submitter",
      "clinvar_submissions_summary": "US:1",
      "phenotype_combined": "not specified",
      "pathogenicity_classification_combined": "Uncertain significance",
      "custom_annotations": null
    }
  ],
  "message": null
}