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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: 16-2086814-CTT-C (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=16&pos=2086814&ref=CTT&alt=C&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "16",
      "pos": 2086814,
      "ref": "CTT",
      "alt": "C",
      "effect": "frameshift_variant",
      "transcript": "ENST00000219476.9",
      "consequences": [
        {
          "aa_ref": "F",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 38,
          "exon_rank_end": null,
          "exon_count": 42,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TSC2",
          "gene_hgnc_id": 12363,
          "hgvs_c": "c.4934_4935delTT",
          "hgvs_p": "p.Phe1645fs",
          "transcript": "NM_000548.5",
          "protein_id": "NP_000539.2",
          "transcript_support_level": null,
          "aa_start": 1645,
          "aa_end": null,
          "aa_length": 1807,
          "cds_start": 4934,
          "cds_end": null,
          "cds_length": 5424,
          "cdna_start": 5044,
          "cdna_end": null,
          "cdna_length": 6415,
          "mane_select": "ENST00000219476.9",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": null,
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 38,
          "exon_rank_end": null,
          "exon_count": 42,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TSC2",
          "gene_hgnc_id": 12363,
          "hgvs_c": "c.4934_4935delTT",
          "hgvs_p": "p.Phe1645fs",
          "transcript": "ENST00000219476.9",
          "protein_id": "ENSP00000219476.3",
          "transcript_support_level": 5,
          "aa_start": 1645,
          "aa_end": null,
          "aa_length": 1807,
          "cds_start": 4934,
          "cds_end": null,
          "cds_length": 5424,
          "cdna_start": 5044,
          "cdna_end": null,
          "cdna_length": 6415,
          "mane_select": "NM_000548.5",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 37,
          "exon_rank_end": null,
          "exon_count": 41,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TSC2",
          "gene_hgnc_id": 12363,
          "hgvs_c": "c.4865_4866delTT",
          "hgvs_p": "p.Phe1622fs",
          "transcript": "ENST00000350773.9",
          "protein_id": "ENSP00000344383.4",
          "transcript_support_level": 1,
          "aa_start": 1622,
          "aa_end": null,
          "aa_length": 1784,
          "cds_start": 4865,
          "cds_end": null,
          "cds_length": 5355,
          "cdna_start": 4940,
          "cdna_end": null,
          "cdna_length": 5538,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 36,
          "exon_rank_end": null,
          "exon_count": 40,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TSC2",
          "gene_hgnc_id": 12363,
          "hgvs_c": "c.4733_4734delTT",
          "hgvs_p": "p.Phe1578fs",
          "transcript": "ENST00000401874.7",
          "protein_id": "ENSP00000384468.2",
          "transcript_support_level": 1,
          "aa_start": 1578,
          "aa_end": null,
          "aa_length": 1740,
          "cds_start": 4733,
          "cds_end": null,
          "cds_length": 5223,
          "cdna_start": 4839,
          "cdna_end": null,
          "cdna_length": 5437,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 34,
          "exon_rank_end": null,
          "exon_count": 38,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TSC2",
          "gene_hgnc_id": 12363,
          "hgvs_c": "n.*4101_*4102delTT",
          "hgvs_p": null,
          "transcript": "ENST00000439117.6",
          "protein_id": "ENSP00000406980.2",
          "transcript_support_level": 1,
          "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": 5073,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 34,
          "exon_rank_end": null,
          "exon_count": 38,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TSC2",
          "gene_hgnc_id": 12363,
          "hgvs_c": "n.*4101_*4102delTT",
          "hgvs_p": null,
          "transcript": "ENST00000439117.6",
          "protein_id": "ENSP00000406980.2",
          "transcript_support_level": 1,
          "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": 5073,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 38,
          "exon_rank_end": null,
          "exon_count": 42,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TSC2",
          "gene_hgnc_id": 12363,
          "hgvs_c": "c.5024_5025delTT",
          "hgvs_p": "p.Phe1675fs",
          "transcript": "ENST00000645186.2",
          "protein_id": "ENSP00000495110.2",
          "transcript_support_level": null,
          "aa_start": 1675,
          "aa_end": null,
          "aa_length": 1837,
          "cds_start": 5024,
          "cds_end": null,
          "cds_length": 5514,
          "cdna_start": 5134,
          "cdna_end": null,
          "cdna_length": 6505,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 38,
          "exon_rank_end": null,
          "exon_count": 42,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TSC2",
          "gene_hgnc_id": 12363,
          "hgvs_c": "c.4931_4932delTT",
          "hgvs_p": "p.Phe1644fs",
          "transcript": "NM_001406663.1",
          "protein_id": "NP_001393592.1",
          "transcript_support_level": null,
          "aa_start": 1644,
          "aa_end": null,
          "aa_length": 1806,
          "cds_start": 4931,
          "cds_end": null,
          "cds_length": 5421,
          "cdna_start": 5041,
          "cdna_end": null,
          "cdna_length": 6412,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 38,
          "exon_rank_end": null,
          "exon_count": 42,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TSC2",
          "gene_hgnc_id": 12363,
          "hgvs_c": "c.4931_4932delTT",
          "hgvs_p": "p.Phe1644fs",
          "transcript": "ENST00000642365.2",
          "protein_id": "ENSP00000495459.2",
          "transcript_support_level": null,
          "aa_start": 1644,
          "aa_end": null,
          "aa_length": 1806,
          "cds_start": 4931,
          "cds_end": null,
          "cds_length": 5421,
          "cdna_start": 5002,
          "cdna_end": null,
          "cdna_length": 5574,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 38,
          "exon_rank_end": null,
          "exon_count": 42,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TSC2",
          "gene_hgnc_id": 12363,
          "hgvs_c": "c.4928_4929delTT",
          "hgvs_p": "p.Phe1643fs",
          "transcript": "ENST00000646388.1",
          "protein_id": "ENSP00000495921.1",
          "transcript_support_level": null,
          "aa_start": 1643,
          "aa_end": null,
          "aa_length": 1805,
          "cds_start": 4928,
          "cds_end": null,
          "cds_length": 5418,
          "cdna_start": 5014,
          "cdna_end": null,
          "cdna_length": 5614,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 37,
          "exon_rank_end": null,
          "exon_count": 41,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TSC2",
          "gene_hgnc_id": 12363,
          "hgvs_c": "c.4865_4866delTT",
          "hgvs_p": "p.Phe1622fs",
          "transcript": "NM_001114382.3",
          "protein_id": "NP_001107854.1",
          "transcript_support_level": null,
          "aa_start": 1622,
          "aa_end": null,
          "aa_length": 1784,
          "cds_start": 4865,
          "cds_end": null,
          "cds_length": 5355,
          "cdna_start": 4975,
          "cdna_end": null,
          "cdna_length": 6346,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 37,
          "exon_rank_end": null,
          "exon_count": 41,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TSC2",
          "gene_hgnc_id": 12363,
          "hgvs_c": "c.4862_4863delTT",
          "hgvs_p": "p.Phe1621fs",
          "transcript": "NM_001406664.1",
          "protein_id": "NP_001393593.1",
          "transcript_support_level": null,
          "aa_start": 1621,
          "aa_end": null,
          "aa_length": 1783,
          "cds_start": 4862,
          "cds_end": null,
          "cds_length": 5352,
          "cdna_start": 4972,
          "cdna_end": null,
          "cdna_length": 6343,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 37,
          "exon_rank_end": null,
          "exon_count": 41,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TSC2",
          "gene_hgnc_id": 12363,
          "hgvs_c": "c.4859_4860delTT",
          "hgvs_p": "p.Phe1620fs",
          "transcript": "ENST00000643946.1",
          "protein_id": "ENSP00000495927.1",
          "transcript_support_level": null,
          "aa_start": 1620,
          "aa_end": null,
          "aa_length": 1782,
          "cds_start": 4859,
          "cds_end": null,
          "cds_length": 5349,
          "cdna_start": 4977,
          "cdna_end": null,
          "cdna_length": 6344,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 37,
          "exon_rank_end": null,
          "exon_count": 41,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TSC2",
          "gene_hgnc_id": 12363,
          "hgvs_c": "c.4856_4857delTT",
          "hgvs_p": "p.Phe1619fs",
          "transcript": "NM_001406665.1",
          "protein_id": "NP_001393594.1",
          "transcript_support_level": null,
          "aa_start": 1619,
          "aa_end": null,
          "aa_length": 1781,
          "cds_start": 4856,
          "cds_end": null,
          "cds_length": 5346,
          "cdna_start": 4966,
          "cdna_end": null,
          "cdna_length": 6337,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 36,
          "exon_rank_end": null,
          "exon_count": 40,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TSC2",
          "gene_hgnc_id": 12363,
          "hgvs_c": "c.4853_4854delTT",
          "hgvs_p": "p.Phe1618fs",
          "transcript": "ENST00000644399.1",
          "protein_id": "ENSP00000493990.1",
          "transcript_support_level": null,
          "aa_start": 1618,
          "aa_end": null,
          "aa_length": 1780,
          "cds_start": 4853,
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          "cds_length": 5343,
          "cdna_start": 4855,
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          "cdna_length": 5445,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 36,
          "exon_rank_end": null,
          "exon_count": 40,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TSC2",
          "gene_hgnc_id": 12363,
          "hgvs_c": "c.4826_4827delTT",
          "hgvs_p": "p.Phe1609fs",
          "transcript": "NM_001406667.1",
          "protein_id": "NP_001393596.1",
          "transcript_support_level": null,
          "aa_start": 1609,
          "aa_end": null,
          "aa_length": 1771,
          "cds_start": 4826,
          "cds_end": null,
          "cds_length": 5316,
          "cdna_start": 4936,
          "cdna_end": null,
          "cdna_length": 6307,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 36,
          "exon_rank_end": null,
          "exon_count": 40,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TSC2",
          "gene_hgnc_id": 12363,
          "hgvs_c": "c.4823_4824delTT",
          "hgvs_p": "p.Phe1608fs",
          "transcript": "NM_001406668.1",
          "protein_id": "NP_001393597.1",
          "transcript_support_level": null,
          "aa_start": 1608,
          "aa_end": null,
          "aa_length": 1770,
          "cds_start": 4823,
          "cds_end": null,
          "cds_length": 5313,
          "cdna_start": 4933,
          "cdna_end": null,
          "cdna_length": 6304,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
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          ],
          "exon_rank": 36,
          "exon_rank_end": null,
          "exon_count": 39,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TSC2",
          "gene_hgnc_id": 12363,
          "hgvs_c": "c.4733_4734delTT",
          "hgvs_p": "p.Phe1578fs",
          "transcript": "ENST00000644329.1",
          "protein_id": "ENSP00000496611.1",
          "transcript_support_level": null,
          "aa_start": 1578,
          "aa_end": null,
          "aa_length": 1769,
          "cds_start": 4733,
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          "cds_length": 5310,
          "cdna_start": 4795,
          "cdna_end": null,
          "cdna_length": 5453,
          "mane_select": null,
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 37,
          "exon_rank_end": null,
          "exon_count": 41,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TSC2",
          "gene_hgnc_id": 12363,
          "hgvs_c": "c.4805_4806delTT",
          "hgvs_p": "p.Phe1602fs",
          "transcript": "NM_021055.3",
          "protein_id": "NP_066399.2",
          "transcript_support_level": null,
          "aa_start": 1602,
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          "aa_length": 1764,
          "cds_start": 4805,
          "cds_end": null,
          "cds_length": 5295,
          "cdna_start": 4915,
          "cdna_end": null,
          "cdna_length": 6286,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 37,
          "exon_rank_end": null,
          "exon_count": 41,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TSC2",
          "gene_hgnc_id": 12363,
          "hgvs_c": "c.4805_4806delTT",
          "hgvs_p": "p.Phe1602fs",
          "transcript": "ENST00000644043.1",
          "protein_id": "ENSP00000496262.1",
          "transcript_support_level": null,
          "aa_start": 1602,
          "aa_end": null,
          "aa_length": 1764,
          "cds_start": 4805,
          "cds_end": null,
          "cds_length": 5295,
          "cdna_start": 4859,
          "cdna_end": null,
          "cdna_length": 5457,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "F",
          "aa_alt": null,
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "frameshift_variant"
          ],
          "exon_rank": 37,
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      ],
      "gene_symbol": "TSC2",
      "gene_hgnc_id": 12363,
      "dbsnp": "rs137854141",
      "frequency_reference_population": null,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 0,
      "gnomad_exomes_af": null,
      "gnomad_genomes_af": null,
      "gnomad_exomes_ac": null,
      "gnomad_genomes_ac": null,
      "gnomad_exomes_homalt": null,
      "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": 7.946,
      "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": 18,
      "acmg_classification": "Pathogenic",
      "acmg_criteria": "PVS1,PM2,PP5_Very_Strong",
      "acmg_by_gene": [
        {
          "score": 18,
          "benign_score": 0,
          "pathogenic_score": 18,
          "criteria": [
            "PVS1",
            "PM2",
            "PP5_Very_Strong"
          ],
          "verdict": "Pathogenic",
          "transcript": "ENST00000219476.9",
          "gene_symbol": "TSC2",
          "hgnc_id": 12363,
          "effects": [
            "frameshift_variant"
          ],
          "inheritance_mode": "AD",
          "hgvs_c": "c.4934_4935delTT",
          "hgvs_p": "p.Phe1645fs"
        }
      ],
      "clinvar_disease": "Tuberous sclerosis 2,Tuberous sclerosis syndrome",
      "clinvar_classification": "Pathogenic",
      "clinvar_review_status": "criteria provided, multiple submitters, no conflicts",
      "clinvar_submissions_summary": "P:4 O:1",
      "phenotype_combined": "Tuberous sclerosis 2|Tuberous sclerosis syndrome",
      "pathogenicity_classification_combined": "Pathogenic",
      "custom_annotations": null
    }
  ],
  "message": null
}