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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: 8-89935609-G-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=8&pos=89935609&ref=G&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "8",
      "pos": 89935609,
      "ref": "G",
      "alt": "T",
      "effect": "stop_gained",
      "transcript": "NM_002485.5",
      "consequences": [
        {
          "aa_ref": "Y",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 16,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NBN",
          "gene_hgnc_id": 7652,
          "hgvs_c": "c.2238C>A",
          "hgvs_p": "p.Tyr746*",
          "transcript": "NM_002485.5",
          "protein_id": "NP_002476.2",
          "transcript_support_level": null,
          "aa_start": 746,
          "aa_end": null,
          "aa_length": 754,
          "cds_start": 2238,
          "cds_end": null,
          "cds_length": 2265,
          "cdna_start": 2344,
          "cdna_end": null,
          "cdna_length": 4622,
          "mane_select": "ENST00000265433.8",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "*",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 16,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NBN",
          "gene_hgnc_id": 7652,
          "hgvs_c": "c.2238C>A",
          "hgvs_p": "p.Tyr746*",
          "transcript": "ENST00000265433.8",
          "protein_id": "ENSP00000265433.4",
          "transcript_support_level": 1,
          "aa_start": 746,
          "aa_end": null,
          "aa_length": 754,
          "cds_start": 2238,
          "cds_end": null,
          "cds_length": 2265,
          "cdna_start": 2344,
          "cdna_end": null,
          "cdna_length": 4622,
          "mane_select": "NM_002485.5",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 17,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NBN",
          "gene_hgnc_id": 7652,
          "hgvs_c": "c.2289C>A",
          "hgvs_p": "p.Tyr763*",
          "transcript": "ENST00000697293.1",
          "protein_id": "ENSP00000513230.1",
          "transcript_support_level": null,
          "aa_start": 763,
          "aa_end": null,
          "aa_length": 771,
          "cds_start": 2289,
          "cds_end": null,
          "cds_length": 2316,
          "cdna_start": 2399,
          "cdna_end": null,
          "cdna_length": 7028,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 16,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NBN",
          "gene_hgnc_id": 7652,
          "hgvs_c": "c.2238C>A",
          "hgvs_p": "p.Tyr746*",
          "transcript": "ENST00000697292.1",
          "protein_id": "ENSP00000513229.1",
          "transcript_support_level": null,
          "aa_start": 746,
          "aa_end": null,
          "aa_length": 754,
          "cds_start": 2238,
          "cds_end": null,
          "cds_length": 2265,
          "cdna_start": 2359,
          "cdna_end": null,
          "cdna_length": 3251,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 16,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NBN",
          "gene_hgnc_id": 7652,
          "hgvs_c": "c.2238C>A",
          "hgvs_p": "p.Tyr746*",
          "transcript": "ENST00000697310.1",
          "protein_id": "ENSP00000513245.1",
          "transcript_support_level": null,
          "aa_start": 746,
          "aa_end": null,
          "aa_length": 754,
          "cds_start": 2238,
          "cds_end": null,
          "cds_length": 2265,
          "cdna_start": 2359,
          "cdna_end": null,
          "cdna_length": 3950,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 15,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NBN",
          "gene_hgnc_id": 7652,
          "hgvs_c": "c.2169C>A",
          "hgvs_p": "p.Tyr723*",
          "transcript": "ENST00000697308.1",
          "protein_id": "ENSP00000513243.1",
          "transcript_support_level": null,
          "aa_start": 723,
          "aa_end": null,
          "aa_length": 731,
          "cds_start": 2169,
          "cds_end": null,
          "cds_length": 2196,
          "cdna_start": 2279,
          "cdna_end": null,
          "cdna_length": 5900,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 14,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NBN",
          "gene_hgnc_id": 7652,
          "hgvs_c": "c.2013C>A",
          "hgvs_p": "p.Tyr671*",
          "transcript": "ENST00000697307.1",
          "protein_id": "ENSP00000513242.1",
          "transcript_support_level": null,
          "aa_start": 671,
          "aa_end": null,
          "aa_length": 679,
          "cds_start": 2013,
          "cds_end": null,
          "cds_length": 2040,
          "cdna_start": 2123,
          "cdna_end": null,
          "cdna_length": 5744,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 17,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NBN",
          "gene_hgnc_id": 7652,
          "hgvs_c": "c.1992C>A",
          "hgvs_p": "p.Tyr664*",
          "transcript": "NM_001024688.3",
          "protein_id": "NP_001019859.1",
          "transcript_support_level": null,
          "aa_start": 664,
          "aa_end": null,
          "aa_length": 672,
          "cds_start": 1992,
          "cds_end": null,
          "cds_length": 2019,
          "cdna_start": 2394,
          "cdna_end": null,
          "cdna_length": 4672,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 16,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NBN",
          "gene_hgnc_id": 7652,
          "hgvs_c": "c.1992C>A",
          "hgvs_p": "p.Tyr664*",
          "transcript": "NM_001440379.1",
          "protein_id": "NP_001427308.1",
          "transcript_support_level": null,
          "aa_start": 664,
          "aa_end": null,
          "aa_length": 672,
          "cds_start": 1992,
          "cds_end": null,
          "cds_length": 2019,
          "cdna_start": 2265,
          "cdna_end": null,
          "cdna_length": 4543,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 17,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NBN",
          "gene_hgnc_id": 7652,
          "hgvs_c": "c.1992C>A",
          "hgvs_p": "p.Tyr664*",
          "transcript": "NM_001440380.1",
          "protein_id": "NP_001427309.1",
          "transcript_support_level": null,
          "aa_start": 664,
          "aa_end": null,
          "aa_length": 672,
          "cds_start": 1992,
          "cds_end": null,
          "cds_length": 2019,
          "cdna_start": 2315,
          "cdna_end": null,
          "cdna_length": 4593,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 16,
          "exon_rank_end": null,
          "exon_count": 16,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NBN",
          "gene_hgnc_id": 7652,
          "hgvs_c": "c.1992C>A",
          "hgvs_p": "p.Tyr664*",
          "transcript": "ENST00000409330.5",
          "protein_id": "ENSP00000386924.1",
          "transcript_support_level": 5,
          "aa_start": 664,
          "aa_end": null,
          "aa_length": 672,
          "cds_start": 1992,
          "cds_end": null,
          "cds_length": 2019,
          "cdna_start": 2398,
          "cdna_end": null,
          "cdna_length": 4523,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 17,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NBN",
          "gene_hgnc_id": 7652,
          "hgvs_c": "c.1992C>A",
          "hgvs_p": "p.Tyr664*",
          "transcript": "ENST00000517337.2",
          "protein_id": "ENSP00000429971.2",
          "transcript_support_level": 4,
          "aa_start": 664,
          "aa_end": null,
          "aa_length": 672,
          "cds_start": 1992,
          "cds_end": null,
          "cds_length": 2019,
          "cdna_start": 2286,
          "cdna_end": null,
          "cdna_length": 6895,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 17,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NBN",
          "gene_hgnc_id": 7652,
          "hgvs_c": "c.1992C>A",
          "hgvs_p": "p.Tyr664*",
          "transcript": "ENST00000523444.2",
          "protein_id": "ENSP00000428252.2",
          "transcript_support_level": 4,
          "aa_start": 664,
          "aa_end": null,
          "aa_length": 672,
          "cds_start": 1992,
          "cds_end": null,
          "cds_length": 2019,
          "cdna_start": 2451,
          "cdna_end": null,
          "cdna_length": 4724,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 18,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NBN",
          "gene_hgnc_id": 7652,
          "hgvs_c": "c.1992C>A",
          "hgvs_p": "p.Tyr664*",
          "transcript": "ENST00000697298.1",
          "protein_id": "ENSP00000513234.1",
          "transcript_support_level": null,
          "aa_start": 664,
          "aa_end": null,
          "aa_length": 672,
          "cds_start": 1992,
          "cds_end": null,
          "cds_length": 2019,
          "cdna_start": 2577,
          "cdna_end": null,
          "cdna_length": 7186,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 15,
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          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NBN",
          "gene_hgnc_id": 7652,
          "hgvs_c": "c.1992C>A",
          "hgvs_p": "p.Tyr664*",
          "transcript": "ENST00000697299.1",
          "protein_id": "ENSP00000513235.1",
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          "cds_length": 2019,
          "cdna_start": 2210,
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          "cdna_length": 6819,
          "mane_select": null,
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 14,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NBN",
          "gene_hgnc_id": 7652,
          "hgvs_c": "c.1926C>A",
          "hgvs_p": "p.Tyr642*",
          "transcript": "ENST00000697304.1",
          "protein_id": "ENSP00000513240.1",
          "transcript_support_level": null,
          "aa_start": 642,
          "aa_end": null,
          "aa_length": 650,
          "cds_start": 1926,
          "cds_end": null,
          "cds_length": 1953,
          "cdna_start": 2036,
          "cdna_end": null,
          "cdna_length": 6645,
          "mane_select": null,
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 5,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NBN",
          "gene_hgnc_id": 7652,
          "hgvs_c": "c.348C>A",
          "hgvs_p": "p.Tyr116*",
          "transcript": "ENST00000613033.1",
          "protein_id": "ENSP00000484487.1",
          "transcript_support_level": 3,
          "aa_start": 116,
          "aa_end": null,
          "aa_length": 124,
          "cds_start": 348,
          "cds_end": null,
          "cds_length": 375,
          "cdna_start": 348,
          "cdna_end": null,
          "cdna_length": 786,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Y",
          "aa_alt": "*",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "stop_gained"
          ],
          "exon_rank": 14,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NBN",
          "gene_hgnc_id": 7652,
          "hgvs_c": "c.1359C>A",
          "hgvs_p": "p.Tyr453*",
          "transcript": "XM_047421795.1",
          "protein_id": "XP_047277751.1",
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          "aa_length": 461,
          "cds_start": 1359,
          "cds_end": null,
          "cds_length": 1386,
          "cdna_start": 1941,
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          "cdna_length": 4219,
          "mane_select": null,
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "Q",
          "aa_alt": "K",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 15,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NBN",
          "gene_hgnc_id": 7652,
          "hgvs_c": "c.2188C>A",
          "hgvs_p": "p.Gln730Lys",
          "transcript": "ENST00000697309.1",
          "protein_id": "ENSP00000513244.1",
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          "cds_start": 2188,
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          "cdna_start": 2298,
          "cdna_end": null,
          "cdna_length": 4409,
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          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 19,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NBN",
          "gene_hgnc_id": 7652,
          "hgvs_c": "n.*2111C>A",
          "hgvs_p": null,
          "transcript": "ENST00000396252.6",
          "protein_id": "ENSP00000379551.2",
          "transcript_support_level": 5,
          "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": 4907,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 2,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "NBN",
          "gene_hgnc_id": 7652,
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          "cdna_length": 2559,
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      ],
      "gene_symbol": "NBN",
      "gene_hgnc_id": 7652,
      "dbsnp": "rs751570713",
      "frequency_reference_population": 6.8709727e-7,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 1,
      "gnomad_exomes_af": 6.87097e-7,
      "gnomad_genomes_af": null,
      "gnomad_exomes_ac": 1,
      "gnomad_genomes_ac": null,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": null,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.5799999833106995,
      "computational_prediction_selected": "Pathogenic",
      "computational_source_selected": "BayesDel_noAF",
      "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": 0.58,
      "bayesdelnoaf_prediction": "Pathogenic",
      "phylop100way_score": 0.246,
      "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": 5,
      "acmg_classification": "Uncertain_significance",
      "acmg_criteria": "PVS1_Moderate,PM2,PP5",
      "acmg_by_gene": [
        {
          "score": 5,
          "benign_score": 0,
          "pathogenic_score": 5,
          "criteria": [
            "PVS1_Moderate",
            "PM2",
            "PP5"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "NM_002485.5",
          "gene_symbol": "NBN",
          "hgnc_id": 7652,
          "effects": [
            "stop_gained"
          ],
          "inheritance_mode": "AR,AD",
          "hgvs_c": "c.2238C>A",
          "hgvs_p": "p.Tyr746*"
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      ],
      "clinvar_disease": " normal intelligence and immunodeficiency,Aplastic anemia,Hereditary cancer-predisposing syndrome,Microcephaly,not provided",
      "clinvar_classification": "Conflicting classifications of pathogenicity",
      "clinvar_review_status": "criteria provided, conflicting classifications",
      "clinvar_submissions_summary": "LP:3 US:3",
      "phenotype_combined": "Hereditary cancer-predisposing syndrome|not provided|Microcephaly, normal intelligence and immunodeficiency|Aplastic anemia",
      "pathogenicity_classification_combined": "Conflicting classifications of pathogenicity",
      "custom_annotations": null
    }
  ],
  "message": null
}