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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: 17-5558520-G-A (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=17&pos=5558520&ref=G&alt=A&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "17",
      "pos": 5558520,
      "ref": "G",
      "alt": "A",
      "effect": "missense_variant",
      "transcript": "NM_033004.4",
      "consequences": [
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NLRP1",
          "gene_hgnc_id": 14374,
          "hgvs_c": "c.2176C>T",
          "hgvs_p": "p.Arg726Trp",
          "transcript": "NM_033004.4",
          "protein_id": "NP_127497.1",
          "transcript_support_level": null,
          "aa_start": 726,
          "aa_end": null,
          "aa_length": 1473,
          "cds_start": 2176,
          "cds_end": null,
          "cds_length": 4422,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000572272.6",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_033004.4"
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NLRP1",
          "gene_hgnc_id": 14374,
          "hgvs_c": "c.2176C>T",
          "hgvs_p": "p.Arg726Trp",
          "transcript": "ENST00000572272.6",
          "protein_id": "ENSP00000460475.1",
          "transcript_support_level": 1,
          "aa_start": 726,
          "aa_end": null,
          "aa_length": 1473,
          "cds_start": 2176,
          "cds_end": null,
          "cds_length": 4422,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_033004.4",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000572272.6"
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NLRP1",
          "gene_hgnc_id": 14374,
          "hgvs_c": "c.2176C>T",
          "hgvs_p": "p.Arg726Trp",
          "transcript": "ENST00000354411.8",
          "protein_id": "ENSP00000346390.3",
          "transcript_support_level": 1,
          "aa_start": 726,
          "aa_end": null,
          "aa_length": 1443,
          "cds_start": 2176,
          "cds_end": null,
          "cds_length": 4332,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000354411.8"
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NLRP1",
          "gene_hgnc_id": 14374,
          "hgvs_c": "c.2176C>T",
          "hgvs_p": "p.Arg726Trp",
          "transcript": "ENST00000269280.9",
          "protein_id": "ENSP00000269280.4",
          "transcript_support_level": 1,
          "aa_start": 726,
          "aa_end": null,
          "aa_length": 1429,
          "cds_start": 2176,
          "cds_end": null,
          "cds_length": 4290,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000269280.9"
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NLRP1",
          "gene_hgnc_id": 14374,
          "hgvs_c": "c.2176C>T",
          "hgvs_p": "p.Arg726Trp",
          "transcript": "ENST00000571451.7",
          "protein_id": "ENSP00000459661.3",
          "transcript_support_level": 1,
          "aa_start": 726,
          "aa_end": null,
          "aa_length": 1429,
          "cds_start": 2176,
          "cds_end": null,
          "cds_length": 4290,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000571451.7"
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NLRP1",
          "gene_hgnc_id": 14374,
          "hgvs_c": "c.2176C>T",
          "hgvs_p": "p.Arg726Trp",
          "transcript": "ENST00000577119.5",
          "protein_id": "ENSP00000460216.1",
          "transcript_support_level": 1,
          "aa_start": 726,
          "aa_end": null,
          "aa_length": 1399,
          "cds_start": 2176,
          "cds_end": null,
          "cds_length": 4200,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000577119.5"
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NLRP1",
          "gene_hgnc_id": 14374,
          "hgvs_c": "c.2176C>T",
          "hgvs_p": "p.Arg726Trp",
          "transcript": "ENST00000571307.2",
          "protein_id": "ENSP00000514459.1",
          "transcript_support_level": 1,
          "aa_start": 726,
          "aa_end": null,
          "aa_length": 1198,
          "cds_start": 2176,
          "cds_end": null,
          "cds_length": 3597,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000571307.2"
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NLRP1",
          "gene_hgnc_id": 14374,
          "hgvs_c": "c.2176C>T",
          "hgvs_p": "p.Arg726Trp",
          "transcript": "ENST00000699633.1",
          "protein_id": "ENSP00000514491.1",
          "transcript_support_level": null,
          "aa_start": 726,
          "aa_end": null,
          "aa_length": 1477,
          "cds_start": 2176,
          "cds_end": null,
          "cds_length": 4434,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000699633.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NLRP1",
          "gene_hgnc_id": 14374,
          "hgvs_c": "c.2176C>T",
          "hgvs_p": "p.Arg726Trp",
          "transcript": "ENST00000617618.5",
          "protein_id": "ENSP00000478516.1",
          "transcript_support_level": 5,
          "aa_start": 726,
          "aa_end": null,
          "aa_length": 1473,
          "cds_start": 2176,
          "cds_end": null,
          "cds_length": 4422,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000617618.5"
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NLRP1",
          "gene_hgnc_id": 14374,
          "hgvs_c": "c.2176C>T",
          "hgvs_p": "p.Arg726Trp",
          "transcript": "NM_033006.4",
          "protein_id": "NP_127499.1",
          "transcript_support_level": null,
          "aa_start": 726,
          "aa_end": null,
          "aa_length": 1443,
          "cds_start": 2176,
          "cds_end": null,
          "cds_length": 4332,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_033006.4"
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NLRP1",
          "gene_hgnc_id": 14374,
          "hgvs_c": "c.2176C>T",
          "hgvs_p": "p.Arg726Trp",
          "transcript": "NM_014922.5",
          "protein_id": "NP_055737.1",
          "transcript_support_level": null,
          "aa_start": 726,
          "aa_end": null,
          "aa_length": 1429,
          "cds_start": 2176,
          "cds_end": null,
          "cds_length": 4290,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_014922.5"
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 6,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NLRP1",
          "gene_hgnc_id": 14374,
          "hgvs_c": "c.2176C>T",
          "hgvs_p": "p.Arg726Trp",
          "transcript": "ENST00000576905.6",
          "protein_id": "ENSP00000458303.2",
          "transcript_support_level": 4,
          "aa_start": 726,
          "aa_end": null,
          "aa_length": 1429,
          "cds_start": 2176,
          "cds_end": null,
          "cds_length": 4290,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
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          "biotype": "protein_coding",
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        },
        {
          "aa_ref": "R",
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          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NLRP1",
          "gene_hgnc_id": 14374,
          "hgvs_c": "c.2176C>T",
          "hgvs_p": "p.Arg726Trp",
          "transcript": "ENST00000699634.1",
          "protein_id": "ENSP00000514492.1",
          "transcript_support_level": null,
          "aa_start": 726,
          "aa_end": null,
          "aa_length": 1408,
          "cds_start": 2176,
          "cds_end": null,
          "cds_length": 4227,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000699634.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NLRP1",
          "gene_hgnc_id": 14374,
          "hgvs_c": "c.2176C>T",
          "hgvs_p": "p.Arg726Trp",
          "transcript": "NM_033007.4",
          "protein_id": "NP_127500.1",
          "transcript_support_level": null,
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          "aa_end": null,
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          "cdna_start": null,
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          "biotype": "protein_coding",
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        },
        {
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          "intron_rank": null,
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          "gene_symbol": "NLRP1",
          "gene_hgnc_id": 14374,
          "hgvs_c": "c.2176C>T",
          "hgvs_p": "p.Arg726Trp",
          "transcript": "ENST00000699613.1",
          "protein_id": "ENSP00000514477.1",
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          "aa_length": 1386,
          "cds_start": 2176,
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          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "ENST00000699613.1"
        },
        {
          "aa_ref": "R",
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          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NLRP1",
          "gene_hgnc_id": 14374,
          "hgvs_c": "c.2176C>T",
          "hgvs_p": "p.Arg726Trp",
          "transcript": "NM_001033053.3",
          "protein_id": "NP_001028225.1",
          "transcript_support_level": null,
          "aa_start": 726,
          "aa_end": null,
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          "cdna_start": null,
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          "biotype": "protein_coding",
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        },
        {
          "aa_ref": "R",
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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": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NLRP1",
          "gene_hgnc_id": 14374,
          "hgvs_c": "c.2176C>T",
          "hgvs_p": "p.Arg726Trp",
          "transcript": "ENST00000262467.11",
          "protein_id": "ENSP00000262467.5",
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        {
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          "intron_rank": null,
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          "hgvs_c": "c.2176C>T",
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          "transcript": "ENST00000699710.1",
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        {
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          ],
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          "intron_rank": null,
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          "gene_symbol": "NLRP1",
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          "hgvs_c": "c.2176C>T",
          "hgvs_p": "p.Arg726Trp",
          "transcript": "ENST00000699707.1",
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          "mane_select": null,
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          "biotype": "protein_coding",
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        },
        {
          "aa_ref": "R",
          "aa_alt": "W",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
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          ],
          "exon_rank": 4,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NLRP1",
          "gene_hgnc_id": 14374,
          "hgvs_c": "c.2176C>T",
          "hgvs_p": "p.Arg726Trp",
          "transcript": "ENST00000699614.1",
          "protein_id": "ENSP00000514478.1",
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          "aa_length": 1327,
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        {
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          "protein_id": "ENSP00000514508.1",
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          "biotype": "nonsense_mediated_decay",
          "feature": "ENST00000699665.1"
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      ],
      "gene_symbol": "NLRP1",
      "gene_hgnc_id": 14374,
      "dbsnp": "rs776245016",
      "frequency_reference_population": 0.000010533529,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 17,
      "gnomad_exomes_af": 0.000010945,
      "gnomad_genomes_af": 0.0000065773,
      "gnomad_exomes_ac": 16,
      "gnomad_genomes_ac": 1,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.33378708362579346,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.214,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.1828,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.29,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 3.072,
      "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": -1,
      "acmg_classification": "Likely_benign",
      "acmg_criteria": "BP4",
      "acmg_by_gene": [
        {
          "score": -1,
          "benign_score": 1,
          "pathogenic_score": 0,
          "criteria": [
            "BP4"
          ],
          "verdict": "Likely_benign",
          "transcript": "NM_033004.4",
          "gene_symbol": "NLRP1",
          "hgnc_id": 14374,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AD,AR,SD",
          "hgvs_c": "c.2176C>T",
          "hgvs_p": "p.Arg726Trp"
        }
      ],
      "clinvar_disease": "Autoinflammation with arthritis and dyskeratosis,not provided",
      "clinvar_classification": "Uncertain significance",
      "clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
      "clinvar_submissions_summary": "US:2",
      "phenotype_combined": "Autoinflammation with arthritis and dyskeratosis|not provided",
      "pathogenicity_classification_combined": "Uncertain significance",
      "custom_annotations": null
    }
  ],
  "message": null
}