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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: 3-196052079-A-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=3&pos=196052079&ref=A&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "3",
      "pos": 196052079,
      "ref": "A",
      "alt": "T",
      "effect": "missense_variant",
      "transcript": "NM_003234.4",
      "consequences": [
        {
          "aa_ref": "L",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 19,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TFRC",
          "gene_hgnc_id": 11763,
          "hgvs_c": "c.2146T>A",
          "hgvs_p": "p.Leu716Met",
          "transcript": "NM_001128148.3",
          "protein_id": "NP_001121620.1",
          "transcript_support_level": null,
          "aa_start": 716,
          "aa_end": null,
          "aa_length": 760,
          "cds_start": 2146,
          "cds_end": null,
          "cds_length": 2283,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000360110.9",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001128148.3"
        },
        {
          "aa_ref": "L",
          "aa_alt": "M",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 19,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TFRC",
          "gene_hgnc_id": 11763,
          "hgvs_c": "c.2146T>A",
          "hgvs_p": "p.Leu716Met",
          "transcript": "ENST00000360110.9",
          "protein_id": "ENSP00000353224.4",
          "transcript_support_level": 1,
          "aa_start": 716,
          "aa_end": null,
          "aa_length": 760,
          "cds_start": 2146,
          "cds_end": null,
          "cds_length": 2283,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_001128148.3",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000360110.9"
        },
        {
          "aa_ref": "L",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 19,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TFRC",
          "gene_hgnc_id": 11763,
          "hgvs_c": "c.2146T>A",
          "hgvs_p": "p.Leu716Met",
          "transcript": "ENST00000392396.7",
          "protein_id": "ENSP00000376197.3",
          "transcript_support_level": 1,
          "aa_start": 716,
          "aa_end": null,
          "aa_length": 760,
          "cds_start": 2146,
          "cds_end": null,
          "cds_length": 2283,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000392396.7"
        },
        {
          "aa_ref": "L",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 18,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TFRC",
          "gene_hgnc_id": 11763,
          "hgvs_c": "c.1903T>A",
          "hgvs_p": "p.Leu635Met",
          "transcript": "ENST00000420415.5",
          "protein_id": "ENSP00000390133.1",
          "transcript_support_level": 1,
          "aa_start": 635,
          "aa_end": null,
          "aa_length": 679,
          "cds_start": 1903,
          "cds_end": null,
          "cds_length": 2040,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000420415.5"
        },
        {
          "aa_ref": "L",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 20,
          "exon_rank_end": null,
          "exon_count": 20,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TFRC",
          "gene_hgnc_id": 11763,
          "hgvs_c": "c.2278T>A",
          "hgvs_p": "p.Leu760Met",
          "transcript": "ENST00000916320.1",
          "protein_id": "ENSP00000586379.1",
          "transcript_support_level": null,
          "aa_start": 760,
          "aa_end": null,
          "aa_length": 804,
          "cds_start": 2278,
          "cds_end": null,
          "cds_length": 2415,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000916320.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 20,
          "exon_rank_end": null,
          "exon_count": 20,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TFRC",
          "gene_hgnc_id": 11763,
          "hgvs_c": "c.2251T>A",
          "hgvs_p": "p.Leu751Met",
          "transcript": "ENST00000698283.1",
          "protein_id": "ENSP00000513649.1",
          "transcript_support_level": null,
          "aa_start": 751,
          "aa_end": null,
          "aa_length": 795,
          "cds_start": 2251,
          "cds_end": null,
          "cds_length": 2388,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000698283.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 19,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TFRC",
          "gene_hgnc_id": 11763,
          "hgvs_c": "c.2176T>A",
          "hgvs_p": "p.Leu726Met",
          "transcript": "ENST00000916322.1",
          "protein_id": "ENSP00000586381.1",
          "transcript_support_level": null,
          "aa_start": 726,
          "aa_end": null,
          "aa_length": 770,
          "cds_start": 2176,
          "cds_end": null,
          "cds_length": 2313,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000916322.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 19,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TFRC",
          "gene_hgnc_id": 11763,
          "hgvs_c": "c.2164T>A",
          "hgvs_p": "p.Leu722Met",
          "transcript": "ENST00000966682.1",
          "protein_id": "ENSP00000636741.1",
          "transcript_support_level": null,
          "aa_start": 722,
          "aa_end": null,
          "aa_length": 766,
          "cds_start": 2164,
          "cds_end": null,
          "cds_length": 2301,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000966682.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 19,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TFRC",
          "gene_hgnc_id": 11763,
          "hgvs_c": "c.2146T>A",
          "hgvs_p": "p.Leu716Met",
          "transcript": "NM_003234.4",
          "protein_id": "NP_003225.2",
          "transcript_support_level": null,
          "aa_start": 716,
          "aa_end": null,
          "aa_length": 760,
          "cds_start": 2146,
          "cds_end": null,
          "cds_length": 2283,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_003234.4"
        },
        {
          "aa_ref": "L",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 19,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TFRC",
          "gene_hgnc_id": 11763,
          "hgvs_c": "c.2146T>A",
          "hgvs_p": "p.Leu716Met",
          "transcript": "ENST00000698280.1",
          "protein_id": "ENSP00000513646.1",
          "transcript_support_level": null,
          "aa_start": 716,
          "aa_end": null,
          "aa_length": 760,
          "cds_start": 2146,
          "cds_end": null,
          "cds_length": 2283,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000698280.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 19,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TFRC",
          "gene_hgnc_id": 11763,
          "hgvs_c": "c.2146T>A",
          "hgvs_p": "p.Leu716Met",
          "transcript": "ENST00000698291.1",
          "protein_id": "ENSP00000513654.1",
          "transcript_support_level": null,
          "aa_start": 716,
          "aa_end": null,
          "aa_length": 760,
          "cds_start": 2146,
          "cds_end": null,
          "cds_length": 2283,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000698291.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 18,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TFRC",
          "gene_hgnc_id": 11763,
          "hgvs_c": "c.2146T>A",
          "hgvs_p": "p.Leu716Met",
          "transcript": "ENST00000873397.1",
          "protein_id": "ENSP00000543456.1",
          "transcript_support_level": null,
          "aa_start": 716,
          "aa_end": null,
          "aa_length": 760,
          "cds_start": 2146,
          "cds_end": null,
          "cds_length": 2283,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000873397.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 19,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TFRC",
          "gene_hgnc_id": 11763,
          "hgvs_c": "c.2146T>A",
          "hgvs_p": "p.Leu716Met",
          "transcript": "ENST00000916321.1",
          "protein_id": "ENSP00000586380.1",
          "transcript_support_level": null,
          "aa_start": 716,
          "aa_end": null,
          "aa_length": 760,
          "cds_start": 2146,
          "cds_end": null,
          "cds_length": 2283,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000916321.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 19,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TFRC",
          "gene_hgnc_id": 11763,
          "hgvs_c": "c.2146T>A",
          "hgvs_p": "p.Leu716Met",
          "transcript": "ENST00000966681.1",
          "protein_id": "ENSP00000636740.1",
          "transcript_support_level": null,
          "aa_start": 716,
          "aa_end": null,
          "aa_length": 760,
          "cds_start": 2146,
          "cds_end": null,
          "cds_length": 2283,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "ENST00000966681.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 20,
          "exon_rank_end": null,
          "exon_count": 20,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TFRC",
          "gene_hgnc_id": 11763,
          "hgvs_c": "c.2146T>A",
          "hgvs_p": "p.Leu716Met",
          "transcript": "ENST00000966683.1",
          "protein_id": "ENSP00000636742.1",
          "transcript_support_level": null,
          "aa_start": 716,
          "aa_end": null,
          "aa_length": 760,
          "cds_start": 2146,
          "cds_end": null,
          "cds_length": 2283,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000966683.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 20,
          "exon_rank_end": null,
          "exon_count": 20,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TFRC",
          "gene_hgnc_id": 11763,
          "hgvs_c": "c.2146T>A",
          "hgvs_p": "p.Leu716Met",
          "transcript": "ENST00000966685.1",
          "protein_id": "ENSP00000636744.1",
          "transcript_support_level": null,
          "aa_start": 716,
          "aa_end": null,
          "aa_length": 760,
          "cds_start": 2146,
          "cds_end": null,
          "cds_length": 2283,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000966685.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 20,
          "exon_rank_end": null,
          "exon_count": 20,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TFRC",
          "gene_hgnc_id": 11763,
          "hgvs_c": "c.2146T>A",
          "hgvs_p": "p.Leu716Met",
          "transcript": "ENST00000966686.1",
          "protein_id": "ENSP00000636745.1",
          "transcript_support_level": null,
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          "aa_end": null,
          "aa_length": 760,
          "cds_start": 2146,
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          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "ENST00000966686.1"
        },
        {
          "aa_ref": "L",
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          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 19,
          "exon_rank_end": null,
          "exon_count": 19,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TFRC",
          "gene_hgnc_id": 11763,
          "hgvs_c": "c.2122T>A",
          "hgvs_p": "p.Leu708Met",
          "transcript": "ENST00000916319.1",
          "protein_id": "ENSP00000586378.1",
          "transcript_support_level": null,
          "aa_start": 708,
          "aa_end": null,
          "aa_length": 752,
          "cds_start": 2122,
          "cds_end": null,
          "cds_length": 2259,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000916319.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 18,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TFRC",
          "gene_hgnc_id": 11763,
          "hgvs_c": "c.1924T>A",
          "hgvs_p": "p.Leu642Met",
          "transcript": "ENST00000698290.1",
          "protein_id": "ENSP00000513653.1",
          "transcript_support_level": null,
          "aa_start": 642,
          "aa_end": null,
          "aa_length": 686,
          "cds_start": 1924,
          "cds_end": null,
          "cds_length": 2061,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000698290.1"
        },
        {
          "aa_ref": "L",
          "aa_alt": "M",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 18,
          "exon_rank_end": null,
          "exon_count": 18,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "TFRC",
          "gene_hgnc_id": 11763,
          "hgvs_c": "c.1903T>A",
          "hgvs_p": "p.Leu635Met",
          "transcript": "NM_001313965.2",
          "protein_id": "NP_001300894.1",
          "transcript_support_level": null,
          "aa_start": 635,
          "aa_end": null,
          "aa_length": 679,
          "cds_start": 1903,
          "cds_end": null,
          "cds_length": 2040,
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      ],
      "gene_symbol": "TFRC",
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      "dbsnp": "rs1271237160",
      "frequency_reference_population": 6.8404694e-7,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 1,
      "gnomad_exomes_af": 6.84047e-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": 0.6754634380340576,
      "computational_prediction_selected": "Uncertain_significance",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.323,
      "revel_prediction": "Uncertain_significance",
      "alphamissense_score": 0.1617,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": -0.32,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 0.23,
      "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": 2,
      "acmg_classification": "Uncertain_significance",
      "acmg_criteria": "PM2",
      "acmg_by_gene": [
        {
          "score": 2,
          "benign_score": 0,
          "pathogenic_score": 2,
          "criteria": [
            "PM2"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "NM_003234.4",
          "gene_symbol": "TFRC",
          "hgnc_id": 11763,
          "effects": [
            "missense_variant"
          ],
          "inheritance_mode": "AR,Unknown",
          "hgvs_c": "c.2146T>A",
          "hgvs_p": "p.Leu716Met"
        },
        {
          "score": 2,
          "benign_score": 0,
          "pathogenic_score": 2,
          "criteria": [
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          ],
          "verdict": "Uncertain_significance",
          "transcript": "ENST00000786800.1",
          "gene_symbol": "ENSG00000286168",
          "hgnc_id": null,
          "effects": [
            "non_coding_transcript_exon_variant"
          ],
          "inheritance_mode": "",
          "hgvs_c": "n.198A>T",
          "hgvs_p": null
        }
      ],
      "clinvar_disease": "Inborn genetic diseases",
      "clinvar_classification": "Uncertain significance",
      "clinvar_review_status": "criteria provided, single submitter",
      "clinvar_submissions_summary": "US:1",
      "phenotype_combined": "Inborn genetic diseases",
      "pathogenicity_classification_combined": "Uncertain significance",
      "custom_annotations": null
    }
  ],
  "message": null
}