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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: 3-123618762-A-C (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=3&pos=123618762&ref=A&alt=C&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "3",
      "pos": 123618762,
      "ref": "A",
      "alt": "C",
      "effect": "missense_variant",
      "transcript": "ENST00000360304.8",
      "consequences": [
        {
          "aa_ref": "S",
          "aa_alt": "A",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 33,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYLK",
          "gene_hgnc_id": 7590,
          "hgvs_c": "c.5377T>G",
          "hgvs_p": "p.Ser1793Ala",
          "transcript": "NM_053025.4",
          "protein_id": "NP_444253.3",
          "transcript_support_level": null,
          "aa_start": 1793,
          "aa_end": null,
          "aa_length": 1914,
          "cds_start": 5377,
          "cds_end": null,
          "cds_length": 5745,
          "cdna_start": 5689,
          "cdna_end": null,
          "cdna_length": 10113,
          "mane_select": "ENST00000360304.8",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "S",
          "aa_alt": "A",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 33,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYLK",
          "gene_hgnc_id": 7590,
          "hgvs_c": "c.5377T>G",
          "hgvs_p": "p.Ser1793Ala",
          "transcript": "ENST00000360304.8",
          "protein_id": "ENSP00000353452.3",
          "transcript_support_level": 5,
          "aa_start": 1793,
          "aa_end": null,
          "aa_length": 1914,
          "cds_start": 5377,
          "cds_end": null,
          "cds_length": 5745,
          "cdna_start": 5689,
          "cdna_end": null,
          "cdna_length": 10113,
          "mane_select": "NM_053025.4",
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "S",
          "aa_alt": "A",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 3,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYLK",
          "gene_hgnc_id": 7590,
          "hgvs_c": "c.97T>G",
          "hgvs_p": "p.Ser33Ala",
          "transcript": "ENST00000418370.6",
          "protein_id": "ENSP00000428967.1",
          "transcript_support_level": 1,
          "aa_start": 33,
          "aa_end": null,
          "aa_length": 154,
          "cds_start": 97,
          "cds_end": null,
          "cds_length": 465,
          "cdna_start": 5119,
          "cdna_end": null,
          "cdna_length": 7282,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "S",
          "aa_alt": "A",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 3,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYLK",
          "gene_hgnc_id": 7590,
          "hgvs_c": "c.97T>G",
          "hgvs_p": "p.Ser33Ala",
          "transcript": "ENST00000578202.2",
          "protein_id": "ENSP00000463691.2",
          "transcript_support_level": 1,
          "aa_start": 33,
          "aa_end": null,
          "aa_length": 82,
          "cds_start": 97,
          "cds_end": null,
          "cds_length": 249,
          "cdna_start": 194,
          "cdna_end": null,
          "cdna_length": 1628,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "S",
          "aa_alt": "A",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 2,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYLK",
          "gene_hgnc_id": 7590,
          "hgvs_c": "c.97T>G",
          "hgvs_p": "p.Ser33Ala",
          "transcript": "ENST00000515434.1",
          "protein_id": "ENSP00000509521.1",
          "transcript_support_level": 1,
          "aa_start": 33,
          "aa_end": null,
          "aa_length": 76,
          "cds_start": 97,
          "cds_end": null,
          "cds_length": 231,
          "cdna_start": 3881,
          "cdna_end": null,
          "cdna_length": 6291,
          "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": 32,
          "exon_rank_end": null,
          "exon_count": 33,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYLK",
          "gene_hgnc_id": 7590,
          "hgvs_c": "n.*4956T>G",
          "hgvs_p": null,
          "transcript": "ENST00000464489.5",
          "protein_id": "ENSP00000417798.1",
          "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": 5901,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "3_prime_UTR_variant"
          ],
          "exon_rank": 32,
          "exon_rank_end": null,
          "exon_count": 33,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYLK",
          "gene_hgnc_id": 7590,
          "hgvs_c": "n.*4956T>G",
          "hgvs_p": null,
          "transcript": "ENST00000464489.5",
          "protein_id": "ENSP00000417798.1",
          "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": 5901,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": true,
          "consequences": [
            "intron_variant"
          ],
          "exon_rank": null,
          "exon_rank_end": null,
          "exon_count": 3,
          "intron_rank": 1,
          "intron_rank_end": null,
          "gene_symbol": "MYLK-AS1",
          "gene_hgnc_id": 42440,
          "hgvs_c": "n.274-10732A>C",
          "hgvs_p": null,
          "transcript": "ENST00000470449.3",
          "protein_id": null,
          "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": 1378,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "S",
          "aa_alt": "A",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 31,
          "exon_rank_end": null,
          "exon_count": 32,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYLK",
          "gene_hgnc_id": 7590,
          "hgvs_c": "c.5407T>G",
          "hgvs_p": "p.Ser1803Ala",
          "transcript": "ENST00000687848.1",
          "protein_id": "ENSP00000508761.1",
          "transcript_support_level": null,
          "aa_start": 1803,
          "aa_end": null,
          "aa_length": 1924,
          "cds_start": 5407,
          "cds_end": null,
          "cds_length": 5775,
          "cdna_start": 5569,
          "cdna_end": null,
          "cdna_length": 5956,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "S",
          "aa_alt": "A",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 31,
          "exon_rank_end": null,
          "exon_count": 32,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYLK",
          "gene_hgnc_id": 7590,
          "hgvs_c": "c.5377T>G",
          "hgvs_p": "p.Ser1793Ala",
          "transcript": "ENST00000686761.1",
          "protein_id": "ENSP00000508758.1",
          "transcript_support_level": null,
          "aa_start": 1793,
          "aa_end": null,
          "aa_length": 1914,
          "cds_start": 5377,
          "cds_end": null,
          "cds_length": 5745,
          "cdna_start": 5736,
          "cdna_end": null,
          "cdna_length": 6162,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "S",
          "aa_alt": "A",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 30,
          "exon_rank_end": null,
          "exon_count": 31,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYLK",
          "gene_hgnc_id": 7590,
          "hgvs_c": "c.5374T>G",
          "hgvs_p": "p.Ser1792Ala",
          "transcript": "ENST00000686406.1",
          "protein_id": "ENSP00000509044.1",
          "transcript_support_level": null,
          "aa_start": 1792,
          "aa_end": null,
          "aa_length": 1913,
          "cds_start": 5374,
          "cds_end": null,
          "cds_length": 5742,
          "cdna_start": 5377,
          "cdna_end": null,
          "cdna_length": 5783,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "S",
          "aa_alt": "A",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 32,
          "exon_rank_end": null,
          "exon_count": 33,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYLK",
          "gene_hgnc_id": 7590,
          "hgvs_c": "c.5224T>G",
          "hgvs_p": "p.Ser1742Ala",
          "transcript": "NM_053027.4",
          "protein_id": "NP_444255.3",
          "transcript_support_level": null,
          "aa_start": 1742,
          "aa_end": null,
          "aa_length": 1863,
          "cds_start": 5224,
          "cds_end": null,
          "cds_length": 5592,
          "cdna_start": 5536,
          "cdna_end": null,
          "cdna_length": 9960,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "S",
          "aa_alt": "A",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 33,
          "exon_rank_end": null,
          "exon_count": 34,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYLK",
          "gene_hgnc_id": 7590,
          "hgvs_c": "c.5224T>G",
          "hgvs_p": "p.Ser1742Ala",
          "transcript": "ENST00000360772.7",
          "protein_id": "ENSP00000354004.3",
          "transcript_support_level": 5,
          "aa_start": 1742,
          "aa_end": null,
          "aa_length": 1863,
          "cds_start": 5224,
          "cds_end": null,
          "cds_length": 5592,
          "cdna_start": 5603,
          "cdna_end": null,
          "cdna_length": 10027,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "S",
          "aa_alt": "A",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 32,
          "exon_rank_end": null,
          "exon_count": 33,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYLK",
          "gene_hgnc_id": 7590,
          "hgvs_c": "c.5170T>G",
          "hgvs_p": "p.Ser1724Ala",
          "transcript": "NM_053026.4",
          "protein_id": "NP_444254.3",
          "transcript_support_level": null,
          "aa_start": 1724,
          "aa_end": null,
          "aa_length": 1845,
          "cds_start": 5170,
          "cds_end": null,
          "cds_length": 5538,
          "cdna_start": 5482,
          "cdna_end": null,
          "cdna_length": 9906,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "S",
          "aa_alt": "A",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 32,
          "exon_rank_end": null,
          "exon_count": 33,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYLK",
          "gene_hgnc_id": 7590,
          "hgvs_c": "c.5170T>G",
          "hgvs_p": "p.Ser1724Ala",
          "transcript": "ENST00000693689.1",
          "protein_id": "ENSP00000510503.1",
          "transcript_support_level": null,
          "aa_start": 1724,
          "aa_end": null,
          "aa_length": 1845,
          "cds_start": 5170,
          "cds_end": null,
          "cds_length": 5538,
          "cdna_start": 5464,
          "cdna_end": null,
          "cdna_length": 7398,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "S",
          "aa_alt": "A",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 31,
          "exon_rank_end": null,
          "exon_count": 32,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYLK",
          "gene_hgnc_id": 7590,
          "hgvs_c": "c.5017T>G",
          "hgvs_p": "p.Ser1673Ala",
          "transcript": "NM_053028.4",
          "protein_id": "NP_444256.3",
          "transcript_support_level": null,
          "aa_start": 1673,
          "aa_end": null,
          "aa_length": 1794,
          "cds_start": 5017,
          "cds_end": null,
          "cds_length": 5385,
          "cdna_start": 5329,
          "cdna_end": null,
          "cdna_length": 9753,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "S",
          "aa_alt": "A",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 29,
          "exon_rank_end": null,
          "exon_count": 30,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYLK",
          "gene_hgnc_id": 7590,
          "hgvs_c": "c.5017T>G",
          "hgvs_p": "p.Ser1673Ala",
          "transcript": "ENST00000346322.10",
          "protein_id": "ENSP00000320622.6",
          "transcript_support_level": 5,
          "aa_start": 1673,
          "aa_end": null,
          "aa_length": 1794,
          "cds_start": 5017,
          "cds_end": null,
          "cds_length": 5385,
          "cdna_start": 5136,
          "cdna_end": null,
          "cdna_length": 5566,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "S",
          "aa_alt": "A",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 32,
          "exon_rank_end": null,
          "exon_count": 33,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYLK",
          "gene_hgnc_id": 7590,
          "hgvs_c": "c.4849T>G",
          "hgvs_p": "p.Ser1617Ala",
          "transcript": "NM_001321309.2",
          "protein_id": "NP_001308238.1",
          "transcript_support_level": null,
          "aa_start": 1617,
          "aa_end": null,
          "aa_length": 1738,
          "cds_start": 4849,
          "cds_end": null,
          "cds_length": 5217,
          "cdna_start": 5481,
          "cdna_end": null,
          "cdna_length": 9905,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "S",
          "aa_alt": "A",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 28,
          "exon_rank_end": null,
          "exon_count": 29,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYLK",
          "gene_hgnc_id": 7590,
          "hgvs_c": "c.4615T>G",
          "hgvs_p": "p.Ser1539Ala",
          "transcript": "ENST00000690457.1",
          "protein_id": "ENSP00000508777.1",
          "transcript_support_level": null,
          "aa_start": 1539,
          "aa_end": null,
          "aa_length": 1660,
          "cds_start": 4615,
          "cds_end": null,
          "cds_length": 4983,
          "cdna_start": 4712,
          "cdna_end": null,
          "cdna_length": 5130,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "S",
          "aa_alt": "A",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 16,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYLK",
          "gene_hgnc_id": 7590,
          "hgvs_c": "c.2611T>G",
          "hgvs_p": "p.Ser871Ala",
          "transcript": "ENST00000685021.1",
          "protein_id": "ENSP00000508447.1",
          "transcript_support_level": null,
          "aa_start": 871,
          "aa_end": null,
          "aa_length": 992,
          "cds_start": 2611,
          "cds_end": null,
          "cds_length": 2979,
          "cdna_start": 3108,
          "cdna_end": null,
          "cdna_length": 5278,
          "mane_select": null,
          "mane_plus": null,
          "biotype": null,
          "feature": null
        },
        {
          "aa_ref": "S",
          "aa_alt": "A",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 16,
          "exon_rank_end": null,
          "exon_count": 17,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "MYLK",
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      ],
      "gene_symbol": "MYLK",
      "gene_hgnc_id": 7590,
      "dbsnp": "rs1553770582",
      "frequency_reference_population": 0.0000013681724,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 2,
      "gnomad_exomes_af": 0.00000136817,
      "gnomad_genomes_af": null,
      "gnomad_exomes_ac": 2,
      "gnomad_genomes_ac": null,
      "gnomad_exomes_homalt": 0,
      "gnomad_genomes_homalt": null,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.11883983016014099,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0.03999999910593033,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.024,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.2297,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.43,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 1.407,
      "phylop100way_prediction": "Benign",
      "spliceai_max_score": 0.04,
      "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": 0,
      "acmg_classification": "Uncertain_significance",
      "acmg_criteria": "PM2,BP4_Moderate",
      "acmg_by_gene": [
        {
          "score": 0,
          "benign_score": 2,
          "pathogenic_score": 2,
          "criteria": [
            "PM2",
            "BP4_Moderate"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "ENST00000360304.8",
          "gene_symbol": "MYLK",
          "hgnc_id": 7590,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AD,AR",
          "hgvs_c": "c.5377T>G",
          "hgvs_p": "p.Ser1793Ala"
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        {
          "score": 0,
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          "pathogenic_score": 2,
          "criteria": [
            "PM2",
            "BP4_Moderate"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "ENST00000470449.3",
          "gene_symbol": "MYLK-AS1",
          "hgnc_id": 42440,
          "effects": [
            "intron_variant"
          ],
          "inheritance_mode": "",
          "hgvs_c": "n.274-10732A>C",
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      ],
      "clinvar_disease": " familial thoracic 7,Aortic aneurysm",
      "clinvar_classification": "Uncertain significance",
      "clinvar_review_status": "criteria provided, single submitter",
      "clinvar_submissions_summary": "US:1",
      "phenotype_combined": "Aortic aneurysm, familial thoracic 7",
      "pathogenicity_classification_combined": "Uncertain significance",
      "custom_annotations": null
    }
  ],
  "message": null
}