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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: 17-58696779-T-C (hg38)

Bash / cURL Example

bash
curl "https://api.genebe.net/cloud/api-public/v1/variant?chr=17&pos=58696779&ref=T&alt=C&genome=hg38&allGenes=true"

API Response

json
{
  "variants": [
    {
      "chr": "17",
      "pos": 58696779,
      "ref": "T",
      "alt": "C",
      "effect": "missense_variant",
      "transcript": "NM_058216.3",
      "consequences": [
        {
          "aa_ref": "F",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RAD51C",
          "gene_hgnc_id": 9820,
          "hgvs_c": "c.491T>C",
          "hgvs_p": "p.Phe164Ser",
          "transcript": "NM_058216.3",
          "protein_id": "NP_478123.1",
          "transcript_support_level": null,
          "aa_start": 164,
          "aa_end": null,
          "aa_length": 376,
          "cds_start": 491,
          "cds_end": null,
          "cds_length": 1131,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "ENST00000337432.9",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "NM_058216.3"
        },
        {
          "aa_ref": "F",
          "aa_alt": "S",
          "canonical": true,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RAD51C",
          "gene_hgnc_id": 9820,
          "hgvs_c": "c.491T>C",
          "hgvs_p": "p.Phe164Ser",
          "transcript": "ENST00000337432.9",
          "protein_id": "ENSP00000336701.4",
          "transcript_support_level": 1,
          "aa_start": 164,
          "aa_end": null,
          "aa_length": 376,
          "cds_start": 491,
          "cds_end": null,
          "cds_length": 1131,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": "NM_058216.3",
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000337432.9"
        },
        {
          "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": 8,
          "intron_rank": 2,
          "intron_rank_end": null,
          "gene_symbol": "RAD51C",
          "gene_hgnc_id": 9820,
          "hgvs_c": "n.404+1590T>C",
          "hgvs_p": null,
          "transcript": "ENST00000482007.5",
          "protein_id": "ENSP00000433332.1",
          "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": "ENST00000482007.5"
        },
        {
          "aa_ref": "F",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RAD51C",
          "gene_hgnc_id": 9820,
          "hgvs_c": "c.491T>C",
          "hgvs_p": "p.Phe164Ser",
          "transcript": "ENST00000930423.1",
          "protein_id": "ENSP00000600482.1",
          "transcript_support_level": null,
          "aa_start": 164,
          "aa_end": null,
          "aa_length": 410,
          "cds_start": 491,
          "cds_end": null,
          "cds_length": 1233,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000930423.1"
        },
        {
          "aa_ref": "F",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RAD51C",
          "gene_hgnc_id": 9820,
          "hgvs_c": "c.491T>C",
          "hgvs_p": "p.Phe164Ser",
          "transcript": "ENST00000875229.1",
          "protein_id": "ENSP00000545288.1",
          "transcript_support_level": null,
          "aa_start": 164,
          "aa_end": null,
          "aa_length": 392,
          "cds_start": 491,
          "cds_end": null,
          "cds_length": 1179,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000875229.1"
        },
        {
          "aa_ref": "F",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RAD51C",
          "gene_hgnc_id": 9820,
          "hgvs_c": "c.491T>C",
          "hgvs_p": "p.Phe164Ser",
          "transcript": "ENST00000583539.5",
          "protein_id": "ENSP00000463121.1",
          "transcript_support_level": 2,
          "aa_start": 164,
          "aa_end": null,
          "aa_length": 346,
          "cds_start": 491,
          "cds_end": null,
          "cds_length": 1041,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000583539.5"
        },
        {
          "aa_ref": "F",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RAD51C",
          "gene_hgnc_id": 9820,
          "hgvs_c": "c.491T>C",
          "hgvs_p": "p.Phe164Ser",
          "transcript": "ENST00000948099.1",
          "protein_id": "ENSP00000618158.1",
          "transcript_support_level": null,
          "aa_start": 164,
          "aa_end": null,
          "aa_length": 339,
          "cds_start": 491,
          "cds_end": null,
          "cds_length": 1020,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000948099.1"
        },
        {
          "aa_ref": "F",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 6,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RAD51C",
          "gene_hgnc_id": 9820,
          "hgvs_c": "c.491T>C",
          "hgvs_p": "p.Phe164Ser",
          "transcript": "ENST00000930424.1",
          "protein_id": "ENSP00000600483.1",
          "transcript_support_level": null,
          "aa_start": 164,
          "aa_end": null,
          "aa_length": 313,
          "cds_start": 491,
          "cds_end": null,
          "cds_length": 942,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000930424.1"
        },
        {
          "aa_ref": "F",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 7,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RAD51C",
          "gene_hgnc_id": 9820,
          "hgvs_c": "c.491T>C",
          "hgvs_p": "p.Phe164Ser",
          "transcript": "ENST00000697690.1",
          "protein_id": "ENSP00000513399.1",
          "transcript_support_level": null,
          "aa_start": 164,
          "aa_end": null,
          "aa_length": 305,
          "cds_start": 491,
          "cds_end": null,
          "cds_length": 918,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000697690.1"
        },
        {
          "aa_ref": "F",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 10,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RAD51C",
          "gene_hgnc_id": 9820,
          "hgvs_c": "c.140T>C",
          "hgvs_p": "p.Phe47Ser",
          "transcript": "ENST00000697686.1",
          "protein_id": "ENSP00000513397.1",
          "transcript_support_level": null,
          "aa_start": 47,
          "aa_end": null,
          "aa_length": 286,
          "cds_start": 140,
          "cds_end": null,
          "cds_length": 861,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000697686.1"
        },
        {
          "aa_ref": "F",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RAD51C",
          "gene_hgnc_id": 9820,
          "hgvs_c": "c.140T>C",
          "hgvs_p": "p.Phe47Ser",
          "transcript": "ENST00000697694.1",
          "protein_id": "ENSP00000513402.1",
          "transcript_support_level": null,
          "aa_start": 47,
          "aa_end": null,
          "aa_length": 259,
          "cds_start": 140,
          "cds_end": null,
          "cds_length": 780,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000697694.1"
        },
        {
          "aa_ref": "F",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RAD51C",
          "gene_hgnc_id": 9820,
          "hgvs_c": "c.128T>C",
          "hgvs_p": "p.Phe43Ser",
          "transcript": "ENST00000413590.5",
          "protein_id": "ENSP00000401741.1",
          "transcript_support_level": 2,
          "aa_start": 43,
          "aa_end": null,
          "aa_length": 256,
          "cds_start": 128,
          "cds_end": null,
          "cds_length": 771,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000413590.5"
        },
        {
          "aa_ref": "F",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RAD51C",
          "gene_hgnc_id": 9820,
          "hgvs_c": "c.140T>C",
          "hgvs_p": "p.Phe47Ser",
          "transcript": "ENST00000461271.6",
          "protein_id": "ENSP00000464056.2",
          "transcript_support_level": 5,
          "aa_start": 47,
          "aa_end": null,
          "aa_length": 229,
          "cds_start": 140,
          "cds_end": null,
          "cds_length": 690,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000461271.6"
        },
        {
          "aa_ref": "F",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RAD51C",
          "gene_hgnc_id": 9820,
          "hgvs_c": "c.287T>C",
          "hgvs_p": "p.Phe96Ser",
          "transcript": "ENST00000425173.5",
          "protein_id": "ENSP00000407282.1",
          "transcript_support_level": 5,
          "aa_start": 96,
          "aa_end": null,
          "aa_length": 212,
          "cds_start": 287,
          "cds_end": null,
          "cds_length": 639,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000425173.5"
        },
        {
          "aa_ref": "F",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 2,
          "exon_rank_end": null,
          "exon_count": 3,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RAD51C",
          "gene_hgnc_id": 9820,
          "hgvs_c": "c.227T>C",
          "hgvs_p": "p.Phe76Ser",
          "transcript": "ENST00000622327.4",
          "protein_id": "ENSP00000482326.1",
          "transcript_support_level": 3,
          "aa_start": 76,
          "aa_end": null,
          "aa_length": 131,
          "cds_start": 227,
          "cds_end": null,
          "cds_length": 396,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "ENST00000622327.4"
        },
        {
          "aa_ref": "F",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RAD51C",
          "gene_hgnc_id": 9820,
          "hgvs_c": "c.491T>C",
          "hgvs_p": "p.Phe164Ser",
          "transcript": "XM_006722001.5",
          "protein_id": "XP_006722064.1",
          "transcript_support_level": null,
          "aa_start": 164,
          "aa_end": null,
          "aa_length": 377,
          "cds_start": 491,
          "cds_end": null,
          "cds_length": 1134,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_006722001.5"
        },
        {
          "aa_ref": "F",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 8,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RAD51C",
          "gene_hgnc_id": 9820,
          "hgvs_c": "c.491T>C",
          "hgvs_p": "p.Phe164Ser",
          "transcript": "XM_006722002.5",
          "protein_id": "XP_006722065.1",
          "transcript_support_level": null,
          "aa_start": 164,
          "aa_end": null,
          "aa_length": 342,
          "cds_start": 491,
          "cds_end": null,
          "cds_length": 1029,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_006722002.5"
        },
        {
          "aa_ref": "F",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RAD51C",
          "gene_hgnc_id": 9820,
          "hgvs_c": "c.140T>C",
          "hgvs_p": "p.Phe47Ser",
          "transcript": "XM_006722004.4",
          "protein_id": "XP_006722067.1",
          "transcript_support_level": null,
          "aa_start": 47,
          "aa_end": null,
          "aa_length": 260,
          "cds_start": 140,
          "cds_end": null,
          "cds_length": 783,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_006722004.4"
        },
        {
          "aa_ref": "F",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 9,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RAD51C",
          "gene_hgnc_id": 9820,
          "hgvs_c": "c.140T>C",
          "hgvs_p": "p.Phe47Ser",
          "transcript": "XM_011525094.3",
          "protein_id": "XP_011523396.1",
          "transcript_support_level": null,
          "aa_start": 47,
          "aa_end": null,
          "aa_length": 260,
          "cds_start": 140,
          "cds_end": null,
          "cds_length": 783,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_011525094.3"
        },
        {
          "aa_ref": "F",
          "aa_alt": "S",
          "canonical": false,
          "protein_coding": true,
          "strand": true,
          "consequences": [
            "missense_variant"
          ],
          "exon_rank": 3,
          "exon_rank_end": null,
          "exon_count": 5,
          "intron_rank": null,
          "intron_rank_end": null,
          "gene_symbol": "RAD51C",
          "gene_hgnc_id": 9820,
          "hgvs_c": "c.491T>C",
          "hgvs_p": "p.Phe164Ser",
          "transcript": "XM_047436505.1",
          "protein_id": "XP_047292461.1",
          "transcript_support_level": null,
          "aa_start": 164,
          "aa_end": null,
          "aa_length": 239,
          "cds_start": 491,
          "cds_end": null,
          "cds_length": 720,
          "cdna_start": null,
          "cdna_end": null,
          "cdna_length": null,
          "mane_select": null,
          "mane_plus": null,
          "biotype": "protein_coding",
          "feature": "XM_047436505.1"
        },
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          "biotype": "pseudogene",
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      ],
      "gene_symbol": "RAD51C",
      "gene_hgnc_id": 9820,
      "dbsnp": "rs1060502589",
      "frequency_reference_population": null,
      "hom_count_reference_population": 0,
      "allele_count_reference_population": 0,
      "gnomad_exomes_af": null,
      "gnomad_genomes_af": null,
      "gnomad_exomes_ac": null,
      "gnomad_genomes_ac": null,
      "gnomad_exomes_homalt": null,
      "gnomad_genomes_homalt": null,
      "gnomad_mito_homoplasmic": null,
      "gnomad_mito_heteroplasmic": null,
      "computational_score_selected": 0.9620115756988525,
      "computational_prediction_selected": "Pathogenic",
      "computational_source_selected": "MetaRNN",
      "splice_score_selected": 0,
      "splice_prediction_selected": "Benign",
      "splice_source_selected": "max_spliceai",
      "revel_score": 0.757,
      "revel_prediction": "Pathogenic",
      "alphamissense_score": 0.9812,
      "alphamissense_prediction": null,
      "bayesdelnoaf_score": 0.28,
      "bayesdelnoaf_prediction": "Pathogenic",
      "phylop100way_score": 7.082,
      "phylop100way_prediction": "Uncertain_significance",
      "spliceai_max_score": 0,
      "spliceai_max_prediction": "Benign",
      "dbscsnv_ada_score": null,
      "dbscsnv_ada_prediction": null,
      "apogee2_score": null,
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      "mitotip_score": null,
      "mitotip_prediction": null,
      "acmg_score": 9,
      "acmg_classification": "Likely_pathogenic",
      "acmg_criteria": "PM1,PM2,PP3_Strong,PP5",
      "acmg_by_gene": [
        {
          "score": 9,
          "benign_score": 0,
          "pathogenic_score": 9,
          "criteria": [
            "PM1",
            "PM2",
            "PP3_Strong",
            "PP5"
          ],
          "verdict": "Likely_pathogenic",
          "transcript": "NM_058216.3",
          "gene_symbol": "RAD51C",
          "hgnc_id": 9820,
          "effects": [
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          "inheritance_mode": "AR,AD",
          "hgvs_c": "c.491T>C",
          "hgvs_p": "p.Phe164Ser"
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      ],
      "clinvar_disease": " 3, familial, susceptibility to,Breast-ovarian cancer,Fanconi anemia complementation group O,Hereditary cancer-predisposing syndrome",
      "clinvar_classification": "Conflicting classifications of pathogenicity",
      "clinvar_review_status": "criteria provided, conflicting classifications",
      "clinvar_submissions_summary": "LP:1 US:3",
      "phenotype_combined": "Fanconi anemia complementation group O|Hereditary cancer-predisposing syndrome|Breast-ovarian cancer, familial, susceptibility to, 3",
      "pathogenicity_classification_combined": "Conflicting classifications of pathogenicity",
      "custom_annotations": null
    }
  ],
  "message": null
}