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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: 2-44323293-C-T (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=2&pos=44323293&ref=C&alt=T&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "2",
      "pos": 44323293,
      "ref": "C",
      "alt": "T",
      "effect": "missense_variant",
      "transcript": "NM_006036.4",
      "consequences": [
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PREPL",
          "gene_hgnc_id": 30228,
          "hgvs_c": "c.1598G>A",
          "hgvs_p": "p.Arg533His",
          "transcript": "NM_001171613.2",
          "protein_id": "NP_001165084.1",
          "transcript_support_level": null,
          "aa_start": 533,
          "aa_end": null,
          "aa_length": 638,
          "cds_start": 1598,
          "cds_end": null,
          "cds_length": 1917,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000409411.6",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001171613.2"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": true,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PREPL",
          "gene_hgnc_id": 30228,
          "hgvs_c": "c.1598G>A",
          "hgvs_p": "p.Arg533His",
          "transcript": "ENST00000409411.6",
          "protein_id": "ENSP00000387095.2",
          "transcript_support_level": 1,
          "aa_start": 533,
          "aa_end": null,
          "aa_length": 638,
          "cds_start": 1598,
          "cds_end": null,
          "cds_length": 1917,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_001171613.2",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000409411.6"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PREPL",
          "gene_hgnc_id": 30228,
          "hgvs_c": "c.1865G>A",
          "hgvs_p": "p.Arg622His",
          "transcript": "ENST00000260648.10",
          "protein_id": "ENSP00000260648.6",
          "transcript_support_level": 1,
          "aa_start": 622,
          "aa_end": null,
          "aa_length": 727,
          "cds_start": 1865,
          "cds_end": null,
          "cds_length": 2184,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000260648.10"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PREPL",
          "gene_hgnc_id": 30228,
          "hgvs_c": "c.1865G>A",
          "hgvs_p": "p.Arg622His",
          "transcript": "ENST00000409936.5",
          "protein_id": "ENSP00000386543.1",
          "transcript_support_level": 1,
          "aa_start": 622,
          "aa_end": null,
          "aa_length": 727,
          "cds_start": 1865,
          "cds_end": null,
          "cds_length": 2184,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000409936.5"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "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": "PREPL",
          "gene_hgnc_id": 30228,
          "hgvs_c": "c.1679G>A",
          "hgvs_p": "p.Arg560His",
          "transcript": "ENST00000378511.7",
          "protein_id": "ENSP00000367772.3",
          "transcript_support_level": 1,
          "aa_start": 560,
          "aa_end": null,
          "aa_length": 665,
          "cds_start": 1679,
          "cds_end": null,
          "cds_length": 1998,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000378511.7"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PREPL",
          "gene_hgnc_id": 30228,
          "hgvs_c": "n.1865G>A",
          "hgvs_p": null,
          "transcript": "ENST00000425263.5",
          "protein_id": "ENSP00000391456.1",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": null,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "nonsense_mediated_decay",
          "feature": "ENST00000425263.5"
        },
        {
          "aa_ref": null,
          "aa_alt": null,
          "canonical": false,
          "protein_coding": false,
          "strand": false,
          "consequences": [
            "non_coding_transcript_exon_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PREPL",
          "gene_hgnc_id": 30228,
          "hgvs_c": "n.1865G>A",
          "hgvs_p": null,
          "transcript": "ENST00000426481.5",
          "protein_id": "ENSP00000409480.1",
          "transcript_support_level": 1,
          "aa_start": null,
          "aa_end": null,
          "aa_length": null,
          "cds_start": null,
          "cds_end": null,
          "cds_length": null,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "nonsense_mediated_decay",
          "feature": "ENST00000426481.5"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PREPL",
          "gene_hgnc_id": 30228,
          "hgvs_c": "c.1865G>A",
          "hgvs_p": "p.Arg622His",
          "transcript": "NM_001171603.1",
          "protein_id": "NP_001165074.1",
          "transcript_support_level": null,
          "aa_start": 622,
          "aa_end": null,
          "aa_length": 727,
          "cds_start": 1865,
          "cds_end": null,
          "cds_length": 2184,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001171603.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PREPL",
          "gene_hgnc_id": 30228,
          "hgvs_c": "c.1865G>A",
          "hgvs_p": "p.Arg622His",
          "transcript": "NM_001171606.2",
          "protein_id": "NP_001165077.1",
          "transcript_support_level": null,
          "aa_start": 622,
          "aa_end": null,
          "aa_length": 727,
          "cds_start": 1865,
          "cds_end": null,
          "cds_length": 2184,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001171606.2"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PREPL",
          "gene_hgnc_id": 30228,
          "hgvs_c": "c.1865G>A",
          "hgvs_p": "p.Arg622His",
          "transcript": "NM_001374275.1",
          "protein_id": "NP_001361204.1",
          "transcript_support_level": null,
          "aa_start": 622,
          "aa_end": null,
          "aa_length": 727,
          "cds_start": 1865,
          "cds_end": null,
          "cds_length": 2184,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001374275.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PREPL",
          "gene_hgnc_id": 30228,
          "hgvs_c": "c.1865G>A",
          "hgvs_p": "p.Arg622His",
          "transcript": "NM_001374276.1",
          "protein_id": "NP_001361205.1",
          "transcript_support_level": null,
          "aa_start": 622,
          "aa_end": null,
          "aa_length": 727,
          "cds_start": 1865,
          "cds_end": null,
          "cds_length": 2184,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001374276.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PREPL",
          "gene_hgnc_id": 30228,
          "hgvs_c": "c.1865G>A",
          "hgvs_p": "p.Arg622His",
          "transcript": "NM_006036.4",
          "protein_id": "NP_006027.2",
          "transcript_support_level": null,
          "aa_start": 622,
          "aa_end": null,
          "aa_length": 727,
          "cds_start": 1865,
          "cds_end": null,
          "cds_length": 2184,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_006036.4"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PREPL",
          "gene_hgnc_id": 30228,
          "hgvs_c": "c.1865G>A",
          "hgvs_p": "p.Arg622His",
          "transcript": "ENST00000409272.5",
          "protein_id": "ENSP00000386909.1",
          "transcript_support_level": 2,
          "aa_start": 622,
          "aa_end": null,
          "aa_length": 727,
          "cds_start": 1865,
          "cds_end": null,
          "cds_length": 2184,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000409272.5"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 12,
          "exon_rank_end": null,
          "exon_count": 15,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PREPL",
          "gene_hgnc_id": 30228,
          "hgvs_c": "c.1865G>A",
          "hgvs_p": "p.Arg622His",
          "transcript": "ENST00000410081.5",
          "protein_id": "ENSP00000386509.1",
          "transcript_support_level": 5,
          "aa_start": 622,
          "aa_end": null,
          "aa_length": 727,
          "cds_start": 1865,
          "cds_end": null,
          "cds_length": 2184,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000410081.5"
        },
        {
          "aa_ref": "R",
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          "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": "PREPL",
          "gene_hgnc_id": 30228,
          "hgvs_c": "c.1679G>A",
          "hgvs_p": "p.Arg560His",
          "transcript": "NM_001042385.2",
          "protein_id": "NP_001035844.1",
          "transcript_support_level": null,
          "aa_start": 560,
          "aa_end": null,
          "aa_length": 665,
          "cds_start": 1679,
          "cds_end": null,
          "cds_length": 1998,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001042385.2"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "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": "PREPL",
          "gene_hgnc_id": 30228,
          "hgvs_c": "c.1667G>A",
          "hgvs_p": "p.Arg556His",
          "transcript": "NM_001042386.2",
          "protein_id": "NP_001035845.1",
          "transcript_support_level": null,
          "aa_start": 556,
          "aa_end": null,
          "aa_length": 661,
          "cds_start": 1667,
          "cds_end": null,
          "cds_length": 1986,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001042386.2"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "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": "PREPL",
          "gene_hgnc_id": 30228,
          "hgvs_c": "c.1667G>A",
          "hgvs_p": "p.Arg556His",
          "transcript": "ENST00000378520.7",
          "protein_id": "ENSP00000367781.3",
          "transcript_support_level": 5,
          "aa_start": 556,
          "aa_end": null,
          "aa_length": 661,
          "cds_start": 1667,
          "cds_end": null,
          "cds_length": 1986,
          "cdna_start": null,
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          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000378520.7"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PREPL",
          "gene_hgnc_id": 30228,
          "hgvs_c": "c.1598G>A",
          "hgvs_p": "p.Arg533His",
          "transcript": "NM_001171617.1",
          "protein_id": "NP_001165088.1",
          "transcript_support_level": null,
          "aa_start": 533,
          "aa_end": null,
          "aa_length": 638,
          "cds_start": 1598,
          "cds_end": null,
          "cds_length": 1917,
          "cdna_start": null,
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          "mane_select": null,
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          "biotype": "protein_coding",
          "feature": "NM_001171617.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
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          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PREPL",
          "gene_hgnc_id": 30228,
          "hgvs_c": "c.1598G>A",
          "hgvs_p": "p.Arg533His",
          "transcript": "NM_001374277.1",
          "protein_id": "NP_001361206.1",
          "transcript_support_level": null,
          "aa_start": 533,
          "aa_end": null,
          "aa_length": 638,
          "cds_start": 1598,
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          "cds_length": 1917,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_001374277.1"
        },
        {
          "aa_ref": "R",
          "aa_alt": "H",
          "canonical": false,
          "protein_coding": true,
          "strand": false,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 11,
          "exon_rank_end": null,
          "exon_count": 14,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "PREPL",
          "gene_hgnc_id": 30228,
          "hgvs_c": "c.1598G>A",
          "hgvs_p": "p.Arg533His",
          "transcript": "ENST00000409957.5",
          "protein_id": "ENSP00000387241.1",
          "transcript_support_level": 5,
          "aa_start": 533,
          "aa_end": null,
          "aa_length": 638,
          "cds_start": 1598,
          "cds_end": null,
          "cds_length": 1917,
          "cdna_start": null,
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          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000409957.5"
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      "dbsnp": "rs375292548",
      "frequency_reference_population": 0.000013073995,
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      "gnomad_exomes_af": 0.0000130641,
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      "gnomad_genomes_ac": 2,
      "gnomad_exomes_homalt": 0,
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      "computational_score_selected": 0.07341688871383667,
      "computational_prediction_selected": "Benign",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.036,
      "revel_prediction": "Benign",
      "alphamissense_score": 0.0681,
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      "bayesdelnoaf_score": -0.53,
      "bayesdelnoaf_prediction": "Benign",
      "phylop100way_score": 0.778,
      "phylop100way_prediction": "Benign",
      "spliceai_max_score": 0,
      "spliceai_max_prediction": "Benign",
      "dbscsnv_ada_score": null,
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      "apogee2_score": null,
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      "acmg_score": 0,
      "acmg_classification": "Uncertain_significance",
      "acmg_criteria": "PM2,BP4_Moderate",
      "acmg_by_gene": [
        {
          "score": 0,
          "benign_score": 2,
          "pathogenic_score": 2,
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            "PM2",
            "BP4_Moderate"
          ],
          "verdict": "Uncertain_significance",
          "transcript": "NM_006036.4",
          "gene_symbol": "PREPL",
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          "effects": [
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          "inheritance_mode": "AR",
          "hgvs_c": "c.1865G>A",
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      ],
      "clinvar_disease": " 22, congenital,Myasthenic syndrome",
      "clinvar_classification": "Uncertain significance",
      "clinvar_review_status": "criteria provided, single submitter",
      "clinvar_submissions_summary": "US:1",
      "phenotype_combined": "Myasthenic syndrome, congenital, 22",
      "pathogenicity_classification_combined": "Uncertain significance",
      "custom_annotations": null
    }
  ],
  "message": null
}