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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: 11-3683371-C-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=11&pos=3683371&ref=C&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "11",
      "pos": 3683371,
      "ref": "C",
      "alt": "T",
      "effect": "missense_variant",
      "transcript": "NM_001365125.2",
      "consequences": [
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 30,
          "exon_rank_end": null,
          "exon_count": 33,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NUP98",
          "gene_hgnc_id": 8068,
          "hgvs_c": "c.4747G>A",
          "hgvs_p": "p.Ala1583Thr",
          "transcript": "NM_016320.5",
          "protein_id": "NP_057404.2",
          "transcript_support_level": null,
          "aa_start": 1583,
          "aa_end": null,
          "aa_length": 1800,
          "cds_start": 4747,
          "cds_end": null,
          "cds_length": 5403,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000324932.12",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_016320.5"
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 30,
          "exon_rank_end": null,
          "exon_count": 33,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NUP98",
          "gene_hgnc_id": 8068,
          "hgvs_c": "c.4747G>A",
          "hgvs_p": "p.Ala1583Thr",
          "transcript": "ENST00000324932.12",
          "protein_id": "ENSP00000316032.7",
          "transcript_support_level": 1,
          "aa_start": 1583,
          "aa_end": null,
          "aa_length": 1800,
          "cds_start": 4747,
          "cds_end": null,
          "cds_length": 5403,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_016320.5",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000324932.12"
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 10,
          "exon_rank_end": null,
          "exon_count": 13,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NUP98",
          "gene_hgnc_id": 8068,
          "hgvs_c": "c.1603G>A",
          "hgvs_p": "p.Ala535Thr",
          "transcript": "ENST00000429801.5",
          "protein_id": "ENSP00000413146.1",
          "transcript_support_level": 1,
          "aa_start": 535,
          "aa_end": null,
          "aa_length": 752,
          "cds_start": 1603,
          "cds_end": null,
          "cds_length": 2259,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000429801.5"
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 31,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NUP98",
          "gene_hgnc_id": 8068,
          "hgvs_c": "c.4891G>A",
          "hgvs_p": "p.Ala1631Thr",
          "transcript": "ENST00000915300.1",
          "protein_id": "ENSP00000585359.1",
          "transcript_support_level": null,
          "aa_start": 1631,
          "aa_end": null,
          "aa_length": 1848,
          "cds_start": 4891,
          "cds_end": null,
          "cds_length": 5547,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000915300.1"
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 31,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NUP98",
          "gene_hgnc_id": 8068,
          "hgvs_c": "c.4840G>A",
          "hgvs_p": "p.Ala1614Thr",
          "transcript": "NM_001365125.2",
          "protein_id": "NP_001352054.1",
          "transcript_support_level": null,
          "aa_start": 1614,
          "aa_end": null,
          "aa_length": 1831,
          "cds_start": 4840,
          "cds_end": null,
          "cds_length": 5496,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001365125.2"
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 31,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NUP98",
          "gene_hgnc_id": 8068,
          "hgvs_c": "c.4840G>A",
          "hgvs_p": "p.Ala1614Thr",
          "transcript": "ENST00000915302.1",
          "protein_id": "ENSP00000585361.1",
          "transcript_support_level": null,
          "aa_start": 1614,
          "aa_end": null,
          "aa_length": 1831,
          "cds_start": 4840,
          "cds_end": null,
          "cds_length": 5496,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000915302.1"
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 31,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NUP98",
          "gene_hgnc_id": 8068,
          "hgvs_c": "c.4813G>A",
          "hgvs_p": "p.Ala1605Thr",
          "transcript": "ENST00000915311.1",
          "protein_id": "ENSP00000585370.1",
          "transcript_support_level": null,
          "aa_start": 1605,
          "aa_end": null,
          "aa_length": 1822,
          "cds_start": 4813,
          "cds_end": null,
          "cds_length": 5469,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000915311.1"
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 30,
          "exon_rank_end": null,
          "exon_count": 33,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NUP98",
          "gene_hgnc_id": 8068,
          "hgvs_c": "c.4798G>A",
          "hgvs_p": "p.Ala1600Thr",
          "transcript": "NM_001365126.2",
          "protein_id": "NP_001352055.1",
          "transcript_support_level": null,
          "aa_start": 1600,
          "aa_end": null,
          "aa_length": 1817,
          "cds_start": 4798,
          "cds_end": null,
          "cds_length": 5454,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001365126.2"
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 30,
          "exon_rank_end": null,
          "exon_count": 33,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NUP98",
          "gene_hgnc_id": 8068,
          "hgvs_c": "c.4798G>A",
          "hgvs_p": "p.Ala1600Thr",
          "transcript": "ENST00000359171.8",
          "protein_id": "ENSP00000352091.5",
          "transcript_support_level": 5,
          "aa_start": 1600,
          "aa_end": null,
          "aa_length": 1817,
          "cds_start": 4798,
          "cds_end": null,
          "cds_length": 5454,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000359171.8"
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 31,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NUP98",
          "gene_hgnc_id": 8068,
          "hgvs_c": "c.4798G>A",
          "hgvs_p": "p.Ala1600Thr",
          "transcript": "ENST00000915310.1",
          "protein_id": "ENSP00000585369.1",
          "transcript_support_level": null,
          "aa_start": 1600,
          "aa_end": null,
          "aa_length": 1817,
          "cds_start": 4798,
          "cds_end": null,
          "cds_length": 5454,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000915310.1"
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 31,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NUP98",
          "gene_hgnc_id": 8068,
          "hgvs_c": "c.4792G>A",
          "hgvs_p": "p.Ala1598Thr",
          "transcript": "ENST00000943238.1",
          "protein_id": "ENSP00000613297.1",
          "transcript_support_level": null,
          "aa_start": 1598,
          "aa_end": null,
          "aa_length": 1815,
          "cds_start": 4792,
          "cds_end": null,
          "cds_length": 5448,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000943238.1"
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 30,
          "exon_rank_end": null,
          "exon_count": 33,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NUP98",
          "gene_hgnc_id": 8068,
          "hgvs_c": "c.4771G>A",
          "hgvs_p": "p.Ala1591Thr",
          "transcript": "ENST00000915303.1",
          "protein_id": "ENSP00000585362.1",
          "transcript_support_level": null,
          "aa_start": 1591,
          "aa_end": null,
          "aa_length": 1808,
          "cds_start": 4771,
          "cds_end": null,
          "cds_length": 5427,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000915303.1"
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 31,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NUP98",
          "gene_hgnc_id": 8068,
          "hgvs_c": "c.4747G>A",
          "hgvs_p": "p.Ala1583Thr",
          "transcript": "ENST00000851290.1",
          "protein_id": "ENSP00000521349.1",
          "transcript_support_level": null,
          "aa_start": 1583,
          "aa_end": null,
          "aa_length": 1800,
          "cds_start": 4747,
          "cds_end": null,
          "cds_length": 5403,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000851290.1"
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 31,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NUP98",
          "gene_hgnc_id": 8068,
          "hgvs_c": "c.4747G>A",
          "hgvs_p": "p.Ala1583Thr",
          "transcript": "ENST00000915312.1",
          "protein_id": "ENSP00000585371.1",
          "transcript_support_level": null,
          "aa_start": 1583,
          "aa_end": null,
          "aa_length": 1800,
          "cds_start": 4747,
          "cds_end": null,
          "cds_length": 5403,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000915312.1"
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 31,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NUP98",
          "gene_hgnc_id": 8068,
          "hgvs_c": "c.4747G>A",
          "hgvs_p": "p.Ala1583Thr",
          "transcript": "ENST00000915314.1",
          "protein_id": "ENSP00000585373.1",
          "transcript_support_level": null,
          "aa_start": 1583,
          "aa_end": null,
          "aa_length": 1800,
          "cds_start": 4747,
          "cds_end": null,
          "cds_length": 5403,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000915314.1"
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 30,
          "exon_rank_end": null,
          "exon_count": 33,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NUP98",
          "gene_hgnc_id": 8068,
          "hgvs_c": "c.4723G>A",
          "hgvs_p": "p.Ala1575Thr",
          "transcript": "NM_001365127.2",
          "protein_id": "NP_001352056.1",
          "transcript_support_level": null,
          "aa_start": 1575,
          "aa_end": null,
          "aa_length": 1792,
          "cds_start": 4723,
          "cds_end": null,
          "cds_length": 5379,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001365127.2"
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 30,
          "exon_rank_end": null,
          "exon_count": 33,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NUP98",
          "gene_hgnc_id": 8068,
          "hgvs_c": "c.4723G>A",
          "hgvs_p": "p.Ala1575Thr",
          "transcript": "ENST00000527104.6",
          "protein_id": "ENSP00000436226.2",
          "transcript_support_level": 3,
          "aa_start": 1575,
          "aa_end": null,
          "aa_length": 1792,
          "cds_start": 4723,
          "cds_end": null,
          "cds_length": 5379,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000527104.6"
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 30,
          "exon_rank_end": null,
          "exon_count": 33,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NUP98",
          "gene_hgnc_id": 8068,
          "hgvs_c": "c.4720G>A",
          "hgvs_p": "p.Ala1574Thr",
          "transcript": "ENST00000700597.1",
          "protein_id": "ENSP00000515087.1",
          "transcript_support_level": null,
          "aa_start": 1574,
          "aa_end": null,
          "aa_length": 1791,
          "cds_start": 4720,
          "cds_end": null,
          "cds_length": 5376,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000700597.1"
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 30,
          "exon_rank_end": null,
          "exon_count": 33,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NUP98",
          "gene_hgnc_id": 8068,
          "hgvs_c": "c.4699G>A",
          "hgvs_p": "p.Ala1567Thr",
          "transcript": "ENST00000915306.1",
          "protein_id": "ENSP00000585365.1",
          "transcript_support_level": null,
          "aa_start": 1567,
          "aa_end": null,
          "aa_length": 1784,
          "cds_start": 4699,
          "cds_end": null,
          "cds_length": 5355,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000915306.1"
        },
        {
          "aa_ref": "A",
          "aa_alt": "T",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 30,
          "exon_rank_end": null,
          "exon_count": 33,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NUP98",
          "gene_hgnc_id": 8068,
          "hgvs_c": "c.4696G>A",
          "hgvs_p": "p.Ala1566Thr",
          "transcript": "NM_001365128.2",
          "protein_id": "NP_001352057.1",
          "transcript_support_level": null,
          "aa_start": 1566,
          "aa_end": null,
          "aa_length": 1783,
          "cds_start": 4696,
          "cds_end": null,
          "cds_length": 5352,
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      ],
      "gene_symbol": "NUP98",
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      "dbsnp": "rs201879606",
      "frequency_reference_population": 0.000012391343,
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      "allele_count_reference_population": 20,
      "gnomad_exomes_af": 0.0000109447,
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      "gnomad_genomes_ac": 4,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": 0,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.17093488574028015,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0.05000000074505806,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.184,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.0855,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.34,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 2.307,
      "phylop100way_prediction": "Benign",
      "spliceai_max_score": 0.05,
      "spliceai_max_prediction": "Benign",
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      "dbscsnv_ada_prediction": null,
      "apogee2_score": null,
      "apogee2_prediction": null,
      "mitotip_score": null,
      "mitotip_prediction": null,
      "acmg_score": -6,
      "acmg_classification": "Likely_benign",
      "acmg_criteria": "BP4_Moderate,BS2",
      "acmg_by_gene": [
        {
          "score": -6,
          "benign_score": 6,
          "pathogenic_score": 0,
          "criteria": [
            "BP4_Moderate",
            "BS2"
          ],
          "verdict": "Likely_benign",
          "transcript": "NM_001365125.2",
          "gene_symbol": "NUP98",
          "hgnc_id": 8068,
          "effects": [
            "missense_variant"
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          "inheritance_mode": "AD",
          "hgvs_c": "c.4840G>A",
          "hgvs_p": "p.Ala1614Thr"
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      ],
      "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
}